Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 45 of 187
Found at i:13266982 original size:199 final size:199
Alignment explanation
Indices: 13266568--13267019 Score: 557
Period size: 199 Copynumber: 2.3 Consensus size: 199
13266558 CTGGTGGTGT
* * * * * *
13266568 AGTGGAACGGATTAAAGCTACGACAGCGAATCTTACTTCCCCGACATTGCAGTTAAATAGATTGA
1 AGTGGAACAGATTAAAGCTACAACAGTGAATCTTACTT-CCCAACATTGCAGTTAAACAAATTGA
** * * * * *
13266633 AGCTACAACAGTGAATCTTACTTCCCTGGTGTTGCAGTGGAATAGATTAAAGCTACAACAACGAA
65 AGCTACAACAGCAAATCTTACTTCCCTGGCGTTGCAGCGAAACAGATTAAAGCTACAACAACAAA
* * * * * **
13266698 TCTTACTTCCCCGACATTGCAGTTAAACAAATTACAGCTACAACAGCGAATCTTATTTCTCTGGT
130 TCTTACTTCCCCGACACTGCAGTGAAACAAATTAAAGCTACAACAACGAATCTTACTTCTCCAGT
*
13266763 GGTGC
195 GGTAC
*
13266768 AGTGGAACAGATTAAAGCTACAACGGTGAATCTTACTTCCTCAACATTGCAGTTAAACAAATTGA
1 AGTGGAACAGATTAAAGCTACAACAGTGAATCTTACTTCC-CAACATTGCAGTTAAACAAATTGA
* *
13266833 AGCTACAATAGCAAATCTTACTT-CCTCGGCGTTGCGGCGAAACAGA-TAAAGCTACAACAACAA
65 AGCTACAACAGCAAATCTTACTTCCCT-GGCGTTGCAGCGAAACAGATTAAAGCTACAACAACAA
*** * * *
13266896 ATCTTACTTCCCCGGTGCTGCAGTGAAATAGATTAAAGCTACAAGAACGAATCTTACTTCTCCAG
129 ATCTTACTTCCCCGACACTGCAGTGAAACAAATTAAAGCTACAACAACGAATCTTACTTCTCCAG
*
13266961 TGTTAC
194 TGGTAC
* *
13266967 AGTGGAACAGATTAAAGCAACAACAGTGAATCTTACTTCCCTAGCATTGCAGT
1 AGTGGAACAGATTAAAGCTACAACAGTGAATCTTACTTCCC-AACATTGCAGT
13267020 GGAGCAGATC
Statistics
Matches: 215, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
198 1 0.00
199 125 0.58
200 89 0.41
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (199 bp):
AGTGGAACAGATTAAAGCTACAACAGTGAATCTTACTTCCCAACATTGCAGTTAAACAAATTGAA
GCTACAACAGCAAATCTTACTTCCCTGGCGTTGCAGCGAAACAGATTAAAGCTACAACAACAAAT
CTTACTTCCCCGACACTGCAGTGAAACAAATTAAAGCTACAACAACGAATCTTACTTCTCCAGTG
GTAC
Found at i:13268629 original size:25 final size:25
Alignment explanation
Indices: 13268598--13268660 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
13268588 TTTTGAACTT
13268598 TATATTATTCATTTTAAATTGTTCAA
1 TATATTATTCATTTTAAATT-TTCAA
* * *
13268624 TA-ATTATTTATTTTAAGTTTTCCA
1 TATATTATTCATTTTAAATTTTCAA
13268648 TATATTA-TCATTT
1 TATATTATTCATTT
13268661 CATTTCCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.34
25 19 0.59
26 2 0.06
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (25 bp):
TATATTATTCATTTTAAATTTTCAA
Found at i:13268862 original size:16 final size:16
Alignment explanation
Indices: 13268843--13268884 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
13268833 TTAAATTATT
13268843 TTTATTATATATA-TAC
1 TTTATTAT-TATAGTAC
*
13268859 TTTATTATTTTAGTAC
1 TTTATTATTATAGTAC
13268875 TTTATT-TTAT
1 TTTATTATTAT
13268885 TTTTACTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTATTATTATAGTAC
Found at i:13268920 original size:10 final size:10
Alignment explanation
Indices: 13268907--13268939 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
13268897 CAACTTTTAC
13268907 ATATATTATT
1 ATATATTATT
13268917 ATATATTATTT
1 ATATATTA-TT
13268928 ATATATTATT
1 ATATATTATT
13268938 AT
1 AT
13268940 TGTGTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATATATTATT
Found at i:13268931 original size:11 final size:11
Alignment explanation
Indices: 13268907--13268937 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13268897 CAACTTTTAC
13268907 ATATATTA-TT
1 ATATATTATTT
13268917 ATATATTATTT
1 ATATATTATTT
13268928 ATATATTATT
1 ATATATTATT
13268938 ATTGTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATATATTATTT
Found at i:13268949 original size:15 final size:15
Alignment explanation
Indices: 13268916--13268956 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
13268906 CATATATTAT
13268916 TATA-TATTATT-TA
1 TATATTATTATTGTA
*
13268929 TATATTATTATTGTG
1 TATATTATTATTGTA
13268944 TATATTATT-TTGT
1 TATATTATTATTGT
13268957 TTTCTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 4 0.16
14 11 0.44
15 10 0.40
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TATATTATTATTGTA
Found at i:13274154 original size:22 final size:22
Alignment explanation
Indices: 13274126--13274173 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13274116 TGATTAAGAT
13274126 AATAAAATAAATAAATA-TAAAA
1 AATAAAATAAA-AAATATTAAAA
*
13274148 AATAAAATAAAAAATATTCAAA
1 AATAAAATAAAAAATATTAAAA
13274170 AATA
1 AATA
13274174 TTTTTTAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
AATAAAATAAAAAATATTAAAA
Found at i:13274155 original size:18 final size:18
Alignment explanation
Indices: 13274124--13274158 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13274114 ATTGATTAAG
13274124 ATAATAAAATAAATAAAT
1 ATAATAAAATAAATAAAT
13274142 ATAA-AAAATAAAATAAA
1 ATAATAAAAT-AAATAAA
13274159 AAATATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
ATAATAAAATAAATAAAT
Found at i:13274157 original size:12 final size:13
Alignment explanation
Indices: 13274134--13274163 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
13274124 ATAATAAAAT
13274134 AAATAAATATAAA
1 AAATAAATATAAA
13274147 AAATAAA-ATAAA
1 AAATAAATATAAA
13274159 AAATA
1 AAATA
13274164 TTCAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAATATAAA
Found at i:13275043 original size:23 final size:23
Alignment explanation
Indices: 13275013--13275062 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
13275003 GATTTTCCCT
* *
13275013 AAATATTATTATTAAATAATTCA
1 AAATATTATCACTAAATAATTCA
* *
13275036 AAATATTATCCCTAAATAATTTA
1 AAATATTATCACTAAATAATTCA
13275059 AAAT
1 AAAT
13275063 TTAAAAATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTATCACTAAATAATTCA
Found at i:13281393 original size:101 final size:101
Alignment explanation
Indices: 13281268--13281491 Score: 439
Period size: 101 Copynumber: 2.2 Consensus size: 101
13281258 ATTTAAGAAA
*
13281268 TCACACCCAATACGTTAGGACATGATCCCTTTAGAATCCCAAACTCGGAATATTTCCTTCATGAT
1 TCACATCCAATACGTTAGGACATGATCCCTTTAGAATCCCAAACTCGGAATATTTCCTTCATGAT
13281333 TTTTAAAAAAAATCTTCATTTCGAGAAATCAATGCG
66 TTTTAAAAAAAATCTTCATTTCGAGAAATCAATGCG
13281369 TCACATCCAATACGTTAGGACATGATCCCTTTAGAATCCCAAACTCGGAATATTTCCTTCATGAT
1 TCACATCCAATACGTTAGGACATGATCCCTTTAGAATCCCAAACTCGGAATATTTCCTTCATGAT
13281434 TTTTAAAAAAAATCTTCATTTCGAGAAATCAATGCG
66 TTTTAAAAAAAATCTTCATTTCGAGAAATCAATGCG
13281470 TCACATCCAATACGTTAGGACA
1 TCACATCCAATACGTTAGGACA
13281492 CAACGTGTTG
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (101 bp):
TCACATCCAATACGTTAGGACATGATCCCTTTAGAATCCCAAACTCGGAATATTTCCTTCATGAT
TTTTAAAAAAAATCTTCATTTCGAGAAATCAATGCG
Found at i:13282158 original size:40 final size:40
Alignment explanation
Indices: 13282079--13282966 Score: 1698
Period size: 40 Copynumber: 22.3 Consensus size: 40
13282069 ATATATTCTG
13282079 AGATTGCATATCATATCTAAGATT--ATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282117 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
*
13282157 AGATTGCATATCATATCTAGGATTGC--ATATCATATCTAA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCT-A
13282196 GAGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 -AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282237 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282277 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282317 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282357 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282397 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282437 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282477 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282517 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282557 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282597 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282637 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282677 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282717 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282757 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282797 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282837 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282877 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
*
13282917 AGATTGCATATCATATCTAGGATTGC--ATATCATATCTA
1 AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
13282955 AGATTGCATATC
1 AGATTGCATATC
13282967 CTCAAAAATT
Statistics
Matches: 841, Mismatches: 3, Indels: 12
0.98 0.00 0.01
Matches are distributed among these distances:
38 59 0.07
39 1 0.00
40 769 0.91
41 1 0.00
42 11 0.01
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (40 bp):
AGATTGCATATCATATCTAAGATTGCATATATCATATCTA
Found at i:13283292 original size:44 final size:44
Alignment explanation
Indices: 13283183--13283523 Score: 224
Period size: 44 Copynumber: 7.9 Consensus size: 44
13283173 GACTTGCTTA
* * *
13283183 TTTAGTCTGCTTCACTGCAACTTCAGGGAGATAAGA-CT-A-GA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
*** * *
13283224 TGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
* * *
13283267 TTTAATCTGCTCCACTGCAATTTCAGGGAGATAGGAT-TATCGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA-AGGT
* * * * *
13283311 TTTAATCTACTCCACTACAACTTCAGGAAGATAAGA-CT-TGCCAT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAG--GT
* * * * * *
13283355 CTTCAGTCTGCCCCACTGTAACTTCA-GGAGAATAAGA-CT-TGCT
1 -TTTAATCTGCTCCACTGCAACTTCAGGGAG-ATAAGATCTAAGGT
* *
13283398 TACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-A-GA
1 T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
*** * **
13283441 TGCGATCTGCT-CTCTGCAACTTCAAAGAGATAAGATCTAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
** *
13283484 TTTAATCCACTCCACTGCAACTTCAGGGAGATATGATCTA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA
13283524 CAATCTTCAA
Statistics
Matches: 230, Mismatches: 53, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
40 43 0.19
41 17 0.07
42 4 0.02
43 20 0.09
44 113 0.49
45 33 0.14
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGT
Found at i:13285034 original size:14 final size:15
Alignment explanation
Indices: 13285017--13285050 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
13285007 TCACTTTTAT
13285017 TTTTTG-TTTTTTTG
1 TTTTTGTTTTTTTTG
13285031 TTTTTGTTTTTTTTG
1 TTTTTGTTTTTTTTG
13285046 TTTTT
1 TTTTT
13285051 TTTAAAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (15 bp):
TTTTTGTTTTTTTTG
Found at i:13285034 original size:15 final size:16
Alignment explanation
Indices: 13285011--13285051 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
13285001 TTTCTTTCAC
*
13285011 TTTTATTTTTTG-TTT
1 TTTTGTTTTTTGTTTT
13285026 TTTTG-TTTTTGTTTT
1 TTTTGTTTTTTGTTTT
13285041 TTTTGTTTTTT
1 TTTTGTTTTTT
13285052 TTAAAATCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 12 0.52
16 5 0.22
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (16 bp):
TTTTGTTTTTTGTTTT
Found at i:13285053 original size:9 final size:8
Alignment explanation
Indices: 13285016--13285052 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
13285006 TTCACTTTTA
13285016 TTTTTTGT
1 TTTTTTGT
13285024 TTTTTTGT
1 TTTTTTGT
*
13285032 TTTTGT-T
1 TTTTTTGT
13285039 TTTTTTGT
1 TTTTTTGT
13285047 TTTTTT
1 TTTTTT
13285053 TAAAATCTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTTTGT
Found at i:13289699 original size:98 final size:98
Alignment explanation
Indices: 13289530--13289724 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
13289520 ATACAATAAA
*
13289530 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
13289595 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
13289628 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
13289693 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
13289725 CATGATTTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:13290427 original size:24 final size:25
Alignment explanation
Indices: 13290398--13290446 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
13290388 ATATAAATAT
13290398 GAAAATATTC-ATTAAAAAATATAG
1 GAAAATATTCGATTAAAAAATATAG
*
13290422 GAAAATATTCGTTTTAAAAAATATA
1 GAAAATATTCG-ATTAAAAAATATA
13290447 TATACATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
26 12 0.55
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (25 bp):
GAAAATATTCGATTAAAAAATATAG
Found at i:13290878 original size:70 final size:70
Alignment explanation
Indices: 13290799--13290937 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
13290789 GGAAATTTTT
13290799 CCTTCTCCTCTAAAACG-ATGCCGTTCAACTTAGACCCAATTGAAATAAAAATAAATAAAAGGGT
1 CCTTCTCCTCTAAAACGAAT-CCGTTCAACTTAGACCCAATTGAAATAAAAATAAATAAAAGGGT
13290863 AAATTC
65 AAATTC
13290869 CCTTCTCCTCTAAAACGAATCCGTTCAACTTAGACCCAATTGAAATAAAAATAAATAAAAGGGTA
1 CCTTCTCCTCTAAAACGAATCCGTTCAACTTAGACCCAATTGAAATAAAAATAAATAAAAGGGTA
13290934 AATT
66 AATT
13290938 AAGAAAAATA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 66 0.97
71 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (70 bp):
CCTTCTCCTCTAAAACGAATCCGTTCAACTTAGACCCAATTGAAATAAAAATAAATAAAAGGGTA
AATTC
Found at i:13291267 original size:23 final size:22
Alignment explanation
Indices: 13291239--13291283 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13291229 AAATTAAATC
13291239 TCTAAGATTACAAAATCATATAT
1 TCTAAGATTAC-AAATCATATAT
* *
13291262 TCTAAGATTGCATATCATATAT
1 TCTAAGATTACAAATCATATAT
13291284 AAGATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATAT
Found at i:13291288 original size:19 final size:19
Alignment explanation
Indices: 13291262--13291403 Score: 221
Period size: 19 Copynumber: 7.4 Consensus size: 19
13291252 AATCATATAT
13291262 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* **
13291281 TATAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
13291300 TCTAAGACTGCATATCATA
1 TCTAAGATTGCATATCATA
13291319 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
13291340 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
13291359 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
13291378 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
13291397 TCTAAGA
1 TCTAAGA
13291404 ATGTTTCCAT
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
19 92 0.83
21 19 0.17
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13300880 original size:31 final size:32
Alignment explanation
Indices: 13300836--13300895 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
13300826 AACTGGTGCC
*
13300836 GCCTAACACCAACCCTCTA-CCCC-TAAATGTT
1 GCCTAACAACAACCCT-TATCCCCTTAAATGTT
*
13300867 GCCTGACAACAACCCTTATCCCCTTAAAT
1 GCCTAACAACAACCCTTATCCCCTTAAAT
13300896 TAACCTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 18 0.72
32 5 0.20
ACGTcount: A:0.30, C:0.40, G:0.07, T:0.23
Consensus pattern (32 bp):
GCCTAACAACAACCCTTATCCCCTTAAATGTT
Found at i:13302849 original size:16 final size:16
Alignment explanation
Indices: 13302828--13302863 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
13302818 AAAAGTAAGC
*
13302828 ACATTCATGTGTTAAT
1 ACATTCATGAGTTAAT
13302844 ACATTCATGAGTTAAT
1 ACATTCATGAGTTAAT
13302860 ACAT
1 ACAT
13302864 ACACTATGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (16 bp):
ACATTCATGAGTTAAT
Found at i:13304924 original size:15 final size:16
Alignment explanation
Indices: 13304899--13304932 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
13304889 AATCATTTAA
*
13304899 TTAACTTAATTAATCT
1 TTAACTTAATTAAACT
13304915 TTAA-TTAATTAAACT
1 TTAACTTAATTAAACT
13304930 TTA
1 TTA
13304933 CTCACAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAACTTAATTAAACT
Found at i:13308952 original size:21 final size:21
Alignment explanation
Indices: 13308923--13308963 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13308913 TCTTTTAATT
* * *
13308923 TTAGTTTAGTTTTCTCTTTTC
1 TTAGGTTAGATTTCTATTTTC
13308944 TTAGGTTAGATTTCTATTTT
1 TTAGGTTAGATTTCTATTTT
13308964 GAGAGATCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.63
Consensus pattern (21 bp):
TTAGGTTAGATTTCTATTTTC
Found at i:13313393 original size:9 final size:9
Alignment explanation
Indices: 13313379--13313455 Score: 93
Period size: 9 Copynumber: 8.4 Consensus size: 9
13313369 TTTGGTTAAA
13313379 AATTACCCG
1 AATTACCCG
13313388 AATTACCCG
1 AATTACCCG
13313397 AATTACCCG
1 AATTACCCG
*
13313406 AATTAACCG
1 AATTACCCG
*
13313415 AATTAACCG
1 AATTACCCG
13313424 AATTA-CCG
1 AATTACCCG
* *
13313432 AAAAATACCCA
1 --AATTACCCG
13313443 AATTACCCG
1 AATTACCCG
13313452 AATT
1 AATT
13313456 TTTTTTTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
8 3 0.05
9 51 0.85
10 4 0.07
11 2 0.03
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:13313929 original size:39 final size:39
Alignment explanation
Indices: 13313886--13314006 Score: 197
Period size: 39 Copynumber: 3.1 Consensus size: 39
13313876 TTTCTTTGCA
* *
13313886 GATAGTATTTGGATATGATTTCTAGAACGAAACTCAGTG
1 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
* * *
13313925 GATAGTATTTGGATATGATTTCCAAAATGAAACTCAGCA
1 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
13313964 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
1 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
13314003 GATA
1 GATA
13314007 CTACACTTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (39 bp):
GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
Found at i:13316882 original size:12 final size:12
Alignment explanation
Indices: 13316865--13316900 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
13316855 ACACAAAGTT
*
13316865 TTTTAAGTATTG
1 TTTTAAGAATTG
13316877 TTTTAAGAATTG
1 TTTTAAGAATTG
*
13316889 TTTTAAGCATTG
1 TTTTAAGAATTG
13316901 ACATAGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.53
Consensus pattern (12 bp):
TTTTAAGAATTG
Found at i:13320197 original size:33 final size:33
Alignment explanation
Indices: 13320160--13320224 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
13320150 GGAAAAATTG
13320160 AAAATGGTTTAAAGAAGAAACTGAAAATAACTA
1 AAAATGGTTTAAAGAAGAAACTGAAAATAACTA
13320193 AAAATGGTTTAAAGAAGAAACTGAAAATAACT
1 AAAATGGTTTAAAGAAGAAACTGAAAATAACT
13320225 TGGAGAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.57, C:0.06, G:0.15, T:0.22
Consensus pattern (33 bp):
AAAATGGTTTAAAGAAGAAACTGAAAATAACTA
Found at i:13322430 original size:62 final size:62
Alignment explanation
Indices: 13322333--13322458 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 62
13322323 TCTGTTATGT
* * * *
13322333 TCTAACAATATACACAGGGGTTTGGATATATTTGAAAAATTCTTAATAAATCATCGATAAAA
1 TCTAACAATACACACAAGGGTTTGGATATATTTGAAAAATCCTTAATAAATCATCAATAAAA
*
13322395 TCTAACAATACACACAAGGGTTTGGATATATTTGAAAAATCCTTAATAAATTATCAATAAAA
1 TCTAACAATACACACAAGGGTTTGGATATATTTGAAAAATCCTTAATAAATCATCAATAAAA
13322457 TC
1 TC
13322459 CGACATGGCC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (62 bp):
TCTAACAATACACACAAGGGTTTGGATATATTTGAAAAATCCTTAATAAATCATCAATAAAA
Found at i:13329748 original size:11 final size:12
Alignment explanation
Indices: 13329716--13329745 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
13329706 TAAATTTAAG
13329716 TAAACAATATTTT
1 TAAA-AATATTTT
13329729 TAAAAATATTTT
1 TAAAAATATTTT
13329741 TAAAA
1 TAAAA
13329746 TATAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAAAATATTTT
Found at i:13333320 original size:23 final size:23
Alignment explanation
Indices: 13333294--13333339 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
13333284 CTTCAAGGTT
13333294 ATTTTAGTCATATATTCACATGA
1 ATTTTAGTCATATATTCACATGA
13333317 ATTTTAGTCATATATTCACATGA
1 ATTTTAGTCATATATTCACATGA
13333340 TGAGGAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (23 bp):
ATTTTAGTCATATATTCACATGA
Found at i:13333465 original size:159 final size:159
Alignment explanation
Indices: 13333176--13333479 Score: 599
Period size: 159 Copynumber: 1.9 Consensus size: 159
13333166 GCGGCGACAT
13333176 CATGATGAGGAGAATCAGCACGTCACGACATCACGACGATTCCTGATGTTATGCAGCCATGTTTT
1 CATGATGAGGAGAATCAGCACGTCACGACATCACGACGATTCCTGATGTTATGCAGCCATGTTTT
*
13333241 GTACAGGTCAACATGACTTTTTCTCCCAGTTGGACTCTGATTACTTCAAGGTTATTTTAGTCATA
66 GTACAGGTCAACATGACTTTTTCTCCCAATTGGACTCTGATTACTTCAAGGTTATTTTAGTCATA
13333306 TATTCACATGAATTTTAGTCATATATTCA
131 TATTCACATGAATTTTAGTCATATATTCA
13333335 CATGATGAGGAGAATCAGCACGTCACGACATCACGACGATTCCTGATGTTATGCAGCCATGTTTT
1 CATGATGAGGAGAATCAGCACGTCACGACATCACGACGATTCCTGATGTTATGCAGCCATGTTTT
13333400 GTACAGGTCAACATGACTTTTTCTCCCAATTGGACTCTGATTACTTCAAGGTTATTTTAGTCATA
66 GTACAGGTCAACATGACTTTTTCTCCCAATTGGACTCTGATTACTTCAAGGTTATTTTAGTCATA
13333465 TATTCACATGAATTT
131 TATTCACATGAATTT
13333480 CAACCTATAA
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 144 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (159 bp):
CATGATGAGGAGAATCAGCACGTCACGACATCACGACGATTCCTGATGTTATGCAGCCATGTTTT
GTACAGGTCAACATGACTTTTTCTCCCAATTGGACTCTGATTACTTCAAGGTTATTTTAGTCATA
TATTCACATGAATTTTAGTCATATATTCA
Found at i:13335687 original size:12 final size:12
Alignment explanation
Indices: 13335670--13335715 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 12
13335660 AACTAATCTT
13335670 CTCTCAAATTTC
1 CTCTCAAATTTC
*
13335682 CTCTC-AATTTG
1 CTCTCAAATTTC
13335693 CTCTCAAA-TTC
1 CTCTCAAATTTC
13335704 CT-TCCAAATTTC
1 CTCT-CAAATTTC
13335716 TCTGAAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 1 0.03
11 18 0.62
12 10 0.34
ACGTcount: A:0.24, C:0.33, G:0.02, T:0.41
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:13335718 original size:22 final size:21
Alignment explanation
Indices: 13335668--13335723 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
13335658 CAAACTAATC
13335668 TTCTCTCAAATTTCCTCTCAAT
1 TTCTCTCAAA-TTCCTCTCAAT
13335690 TTGCTCTCAAATTCCT-TCCAAAT
1 TT-CTCTCAAATTCCTCT-C-AAT
*
13335713 TTCTCTGAAAT
1 TTCTCTCAAAT
13335724 CTATATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.03
22 16 0.53
23 13 0.43
ACGTcount: A:0.25, C:0.29, G:0.04, T:0.43
Consensus pattern (21 bp):
TTCTCTCAAATTCCTCTCAAT
Found at i:13335764 original size:51 final size:51
Alignment explanation
Indices: 13335683--13335782 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
13335673 TCAAATTTCC
13335683 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTGAAATCTATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTGAAATCTATATTTAA
* * *
13335734 TCTCAATTTGCTCTCAATTTCC-TCCTAAATTTCTCTTAAATCTCTATTT
1 TCTCAATTTGCTCTCAAATTCCTTCC-AAATTTCTCTGAAATCTATATTT
13335783 TGAAATAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 3 0.07
51 42 0.93
ACGTcount: A:0.26, C:0.25, G:0.03, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTGAAATCTATATTTAA
Found at i:13336369 original size:42 final size:42
Alignment explanation
Indices: 13336293--13336378 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
13336283 CTAGCGATTG
* **
13336293 AAGAGCGGTGTGTTACGAGCTTTTGGGCGCTATTCTGGAGAA
1 AAGAGCGGTGTGCTACGAGCTTTTGGGCGCTATTCCAGAGAA
**
13336335 AAGAGCGGTGTGCTACGAGCTTTTGGGCTTTATTCCAGAGAA
1 AAGAGCGGTGTGCTACGAGCTTTTGGGCGCTATTCCAGAGAA
13336377 AA
1 AA
13336379 TAGACGGAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (42 bp):
AAGAGCGGTGTGCTACGAGCTTTTGGGCGCTATTCCAGAGAA
Found at i:13336979 original size:7 final size:7
Alignment explanation
Indices: 13336967--13336999 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
13336957 TAGTCGATTG
13336967 GTATTTA
1 GTATTTA
13336974 GTATTTA
1 GTATTTA
13336981 GTATTTA
1 GTATTTA
13336988 GTATTTA
1 GTATTTA
13336995 GTATT
1 GTATT
13337000 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:13337677 original size:18 final size:18
Alignment explanation
Indices: 13337650--13337689 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13337640 CAGGTGCGTT
* *
13337650 TCCTATCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
13337668 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
13337686 TCCT
1 TCCT
13337690 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.05, T:0.47
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:13338234 original size:22 final size:22
Alignment explanation
Indices: 13338209--13338939 Score: 788
Period size: 22 Copynumber: 33.9 Consensus size: 22
13338199 TTTAATTGAC
*
13338209 AAACCCTAAACGCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13338231 AAACCCTGACCCTGACCTTTAACTTAA
1 AAACCCT-A----AACCCTTAACTTAA
* *
13338258 AAACTCT-AACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
13338279 AAACCCTAAACCCTTAACATAA
1 AAACCCTAAACCCTTAACTTAA
* * * *
13338301 AAACCCT-AATCTTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
13338322 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13338344 AAACCATGAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13338366 AAACCCT-AACCTTTGACTGT-A
1 AAACCCTAAACCCTTAACT-TAA
13338387 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13338409 AAACCATAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
13338431 AAACCCTAAACCCTT-ACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13338452 AAATCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* * *
13338473 AAACCCTAAATCTTTAATTTAA
1 AAACCCTAAACCCTTAACTTAA
*
13338495 AAACACT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13338516 AAACCCCAAACCTTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
* *
13338537 AAACCCT-AACTCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
13338558 AAACCATAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
13338579 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13338600 AAACTCCT-AACCCTTAATTTTA
1 AAAC-CCTAAACCCTTAACTTAA
* * *
13338622 AAACCTTAAA-CTTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
**
13338643 AAACTTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
13338665 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
13338686 AATCCCTAAA-CCTTAAACCTT-A
1 AAACCCTAAACCCTT-AA-CTTAA
13338708 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13338730 AAACCTTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
13338752 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
13338773 AAACCCTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
13338795 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
13338816 AAATCATAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
13338838 AAACCAT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* * *
13338859 AAACCATAAACCCTTAGCCT-A
1 AAACCCTAAACCCTTAACTTAA
13338880 AAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
13338901 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
13338922 AAACCCT-AACCTTTAACT
1 AAACCCTAAACCCTTAACT
13338940 CAAATATAAT
Statistics
Matches: 605, Mismatches: 76, Indels: 57
0.82 0.10 0.08
Matches are distributed among these distances:
20 41 0.07
21 268 0.44
22 271 0.45
23 8 0.01
27 17 0.03
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.27
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:13338269 original size:21 final size:21
Alignment explanation
Indices: 13338239--13338939 Score: 750
Period size: 21 Copynumber: 32.8 Consensus size: 21
13338229 AAAAACCCTG
* *
13338239 ACCCTGACCTTTAACTTAAAA
1 ACCCTAACCCTTAACTTAAAA
* *
13338260 ACTCTAACCTTTAACTTAAAA
1 ACCCTAACCCTTAACTTAAAA
*
13338281 ACCCTAAACCCTTAACATAAAA
1 ACCCT-AACCCTTAACTTAAAA
* * * *
13338303 ACCCTAATCTTTGACTTTAAA
1 ACCCTAACCCTTAACTTAAAA
13338324 ACCCTAAACCCTTAACTTAAAA
1 ACCCT-AACCCTTAACTTAAAA
*
13338346 ACCATGAACCCTTAACTTAAAA
1 ACCCT-AACCCTTAACTTAAAA
* *
13338368 ACCCTAACCTTTGACTGT-AAA
1 ACCCTAACCCTTAACT-TAAAA
13338389 ACCCTAAACCCTTAACTTAAAA
1 ACCCT-AACCCTTAACTTAAAA
* *
13338411 ACCATAAACTCTTAACTTAAAA
1 ACCCT-AACCCTTAACTTAAAA
13338433 ACCCTAAACCCTT-ACTTAAAA
1 ACCCT-AACCCTTAACTTAAAA
* *
13338454 ATCCTAACCCTTAACTTTAAA
1 ACCCTAACCCTTAACTTAAAA
* * *
13338475 ACCCTAAATCTTTAATTTAAAA
1 ACCCT-AACCCTTAACTTAAAA
*
13338497 ACACTAACCCTTAACTTAAAA
1 ACCCTAACCCTTAACTTAAAA
* *
13338518 ACCCCAAACCTTTAACTT-AAA
1 A-CCCTAACCCTTAACTTAAAA
* *
13338539 ACCCTAACTCTTAACTTTAAA
1 ACCCTAACCCTTAACTTAAAA
*
13338560 ACCATAAACCCTTAACTT-AAA
1 ACCCT-AACCCTTAACTTAAAA
13338581 ACCCTAACCCTTAACTTAAAA
1 ACCCTAACCCTTAACTTAAAA
* *
13338602 ACTCCTAACCCTTAATTTTAAA
1 AC-CCTAACCCTTAACTTAAAA
* * * *
13338624 ACCTTAAACTTTAACTTTAAA
1 ACCCTAACCCTTAACTTAAAA
**
13338645 ACTTTAAACCCTTAACTTAAAA
1 ACCCT-AACCCTTAACTTAAAA
13338667 ACCCTAACCCTTAACTTAAAA
1 ACCCTAACCCTTAACTTAAAA
* *
13338688 TCCCTAAACCTTAAACCTT-AAA
1 ACCCTAACCCTT-AA-CTTAAAA
13338710 ACCCTAAACCCTTAACTTAAAA
1 ACCCT-AACCCTTAACTTAAAA
* *
13338732 ACCTTAAACCTTTAACTTAAAA
1 ACCCT-AACCCTTAACTTAAAA
13338754 ACCCTAACCCTTAACTTAAAA
1 ACCCTAACCCTTAACTTAAAA
*
13338775 ACCCTTAACCCTTAACTTTAAA
1 ACCC-TAACCCTTAACTTAAAA
13338797 ACCCTAACCCTTAACTTAAAA
1 ACCCTAACCCTTAACTTAAAA
* * *
13338818 ATCATAAACCCTTAACTTTAAA
1 ACCCT-AACCCTTAACTTAAAA
* *
13338840 ACCATAACCCTTAACTTTAAA
1 ACCCTAACCCTTAACTTAAAA
* * *
13338861 ACCATAAACCCTTAGCCT-AAA
1 ACCCT-AACCCTTAACTTAAAA
13338882 ACCCTAAACCCTTAACTT-AAA
1 ACCCT-AACCCTTAACTTAAAA
13338903 ACCCTAACCCTTAACTTAAAA
1 ACCCTAACCCTTAACTTAAAA
*
13338924 ACCCTAACCTTTAACT
1 ACCCTAACCCTTAACT
13338940 CAAATATAAT
Statistics
Matches: 582, Mismatches: 77, Indels: 42
0.83 0.11 0.06
Matches are distributed among these distances:
20 44 0.08
21 268 0.46
22 261 0.45
23 9 0.02
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.28
Consensus pattern (21 bp):
ACCCTAACCCTTAACTTAAAA
Found at i:13338302 original size:43 final size:43
Alignment explanation
Indices: 13338209--13338939 Score: 811
Period size: 43 Copynumber: 16.9 Consensus size: 43
13338199 TTTAATTGAC
* *
13338209 AAACCCTAAACGCTTAACTTAAAAACCCTGACCCTGACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-A-----ACCCTTAACTTAA
* * *
13338258 AAACTCT-AACCTTTAACTTAAAAACCCTAAACCCTTAACATAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* * * *
13338301 AAACCCT-AATCTTTGACTTTAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* * * *
13338344 AAACCATGAACCCTTAACTTAAAAACCCTAACCTTTGACTGT-A
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACT-TAA
* *
13338387 AAACCCTAAACCCTTAACTTAAAAACCATAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* *
13338431 AAACCCTAAACCCTT-ACTTAAAAATCCTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * *
13338473 AAACCCTAAATCTTTAATTTAAAAACACTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * *
13338516 AAACCCCAAACCTTTAACTT-AAAACCCTAACTCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
*
13338558 AAACCATAAACCCTTAACTT-AAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * * * *
13338600 AAACTCCT-AACCCTTAATTTTAAAACCTTAAACTTTAACTTTA
1 AAAC-CCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
**
13338643 AAACTTTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
*
13338686 AATCCCTAAA-CCTTAAACCTT-AAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTT-AA-CTTAAAAACCCT-AACCCTTAACTTAA
* *
13338730 AAACCTTAAACCTTTAACTTAAAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* *
13338773 AAACCCTTAACCCTTAACTTTAAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * * *
13338816 AAATCATAAACCCTTAACTTTAAAACCATAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * *
13338859 AAACCATAAACCCTTAGCCT-AAAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
*
13338901 AAACCCT-AACCCTTAACTTAAAAACCCTAACCTTTAACT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACT
13338940 CAAATATAAT
Statistics
Matches: 585, Mismatches: 82, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
41 20 0.03
42 123 0.21
43 336 0.57
44 77 0.13
45 3 0.01
48 20 0.03
49 6 0.01
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.27
Consensus pattern (43 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
Found at i:13339080 original size:37 final size:38
Alignment explanation
Indices: 13339038--13339204 Score: 112
Period size: 37 Copynumber: 4.4 Consensus size: 38
13339028 TTTGACTGGC
13339038 ACTAACAATTAATA-ATTTGATATAATTTGATAATTTT
1 ACTAACAATTAATACATTTGATATAATTTGATAATTTT
* * * *
13339075 ACTAACCATTAATACAATT-AT-CAA-TTAATAATTTT
1 ACTAACAATTAATACATTTGATATAATTTGATAATTTT
* * ** * * * * * **
13339110 ACATTCACATAATGTTAGATTTGAAAAAATGTT-TTGACTGGT
1 AC--TAACA-ATTAATACATTTGATATAAT-TTGAT-AATTTT
13339152 ACTAACAATTAATA-ATTTGATATAATTTGATAATTTT
1 ACTAACAATTAATACATTTGATATAATTTGATAATTTT
13339189 ACTAACAATTAATACA
1 ACTAACAATTAATACA
13339205 ATTATCAATT
Statistics
Matches: 92, Mismatches: 27, Indels: 21
0.66 0.19 0.15
Matches are distributed among these distances:
35 12 0.13
36 2 0.02
37 37 0.40
38 22 0.24
39 5 0.05
40 6 0.07
41 1 0.01
42 7 0.08
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (38 bp):
ACTAACAATTAATACATTTGATATAATTTGATAATTTT
Found at i:13339143 original size:114 final size:114
Alignment explanation
Indices: 13338943--13339221 Score: 522
Period size: 114 Copynumber: 2.4 Consensus size: 114
13338933 TTTAACTCAA
*
13338943 ATATAATTTGATAAATTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
13339008 AGTTAGATTTGAAAAAATGTTTTGACTGGCACTAACAATTAATAATTTG
66 AGTTAGATTTGAAAAAATGTTTTGACTGGCACTAACAATTAATAATTTG
13339057 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
* *
13339122 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 AGTTAGATTTGAAAAAATGTTTTGACTGGCACTAACAATTAATAATTTG
*
13339171 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATT
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATT
13339222 GAAAAAAATA
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 161 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (114 bp):
ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
AGTTAGATTTGAAAAAATGTTTTGACTGGCACTAACAATTAATAATTTG
Found at i:13342531 original size:127 final size:126
Alignment explanation
Indices: 13342232--13342774 Score: 822
Period size: 127 Copynumber: 4.3 Consensus size: 126
13342222 CTCAAACATG
* * * *
13342232 CTACTGTAGCAAAAGCGCGTCCATGAAGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
13342297 TAGAAGCATTTTTTTAAACCATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
*
13342358 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
13342423 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
*
13342485 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAGATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
13342550 TTGAAGTGTTTTTTTAAACTATTTGCTTAGAAACATCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* *
13342612 CTACTGTAGCAAAAGCGCGTCCACGA-GGAGCGATTTCACAATTTCTTCTCATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
* * **
13342675 CTTGAAGC-ATTTTTTATACTATTTTTTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * *
13342736 CTACTATAGCAAAAGCGCGTACACGCGGGTGCGACTTCA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCA
13342775 GACATCCTTT
Statistics
Matches: 384, Mismatches: 30, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
124 32 0.08
125 48 0.12
126 146 0.38
127 158 0.41
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:13342680 original size:253 final size:251
Alignment explanation
Indices: 13342232--13342774 Score: 820
Period size: 253 Copynumber: 2.2 Consensus size: 251
13342222 CTCAAACATG
* * *
13342232 CTACTGTAGCAAAAGCGCGTCCATGAAGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
*
13342297 TAGAAGCATTTTTTTAAACCATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
66 TAGAAGCATTTTTTTAAACCATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAGGACCTAC
*
13342362 TGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGA
131 TGTAGCAAAAGCGCGTCCACAAGGGAGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGA
*
13342427 AGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
196 AGC-ATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTCCAGGAC
* *
13342485 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAGATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
* ** * *
13342550 TTGAAGTGTTTTTTTAAACTATTTGCTTAGAAACATCAACTCGAAATTATTTCTTCCAGGACCTA
66 TAGAAGCATTTTTTTAAACCATTTGCTCAGAAACATCAACTCGAAATTATTT-TTCCAGGACCTA
* *
13342615 CTGTAGCAAAAGCGCGTCCACGA-GGAGCGATTTCACAATTTCTTCTCATAA-AGCATCCTGCTT
130 CTGTAGCAAAAGCGCGTCCACAAGGGAGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTT
* ** *
13342678 GAAGCATTTTTTATACTATTTTTTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
194 GAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * * *
13342736 CTACTATAGCAAAAGCGCGTACACGCGGGTGCGACTTCA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCA
13342775 GACATCCTTT
Statistics
Matches: 264, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
251 43 0.16
252 39 0.15
253 146 0.55
254 36 0.14
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (251 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
TAGAAGCATTTTTTTAAACCATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAGGACCTAC
TGTAGCAAAAGCGCGTCCACAAGGGAGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGA
AGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
Found at i:13345118 original size:5 final size:5
Alignment explanation
Indices: 13345108--13345132 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13345098 TTGCAAGCTA
13345108 GGTTT GGTTT GGTTT GGTTT GGTTT
1 GGTTT GGTTT GGTTT GGTTT GGTTT
13345133 TGTTCTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (5 bp):
GGTTT
Found at i:13353590 original size:16 final size:16
Alignment explanation
Indices: 13353547--13353590 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
13353537 AAAATCAAAT
*
13353547 AAAATTTAATTATATA
1 AAAATTAAATTATATA
* *
13353563 AAAGTTACATTATATA
1 AAAATTAAATTATATA
13353579 AAAATTAAATTA
1 AAAATTAAATTA
13353591 GTTAACAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
AAAATTAAATTATATA
Found at i:13353666 original size:38 final size:38
Alignment explanation
Indices: 13353623--13353704 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
13353613 AAAAAGTCAG
13353623 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
*
13353661 TTATAATTAAACTTTTAATAAGATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
13353699 TTATAA
1 TTATAA
13353705 ACTTTATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:13353830 original size:60 final size:60
Alignment explanation
Indices: 13353737--13353858 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
13353727 ATATTAAACT
* * * * *
13353737 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
*
13353797 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
13353857 AA
1 AA
13353859 TATTCATACA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 4 0.07
60 51 0.93
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:13353877 original size:21 final size:21
Alignment explanation
Indices: 13353846--13354012 Score: 86
Period size: 27 Copynumber: 7.2 Consensus size: 21
13353836 AATTAATTAT
13353846 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
13353868 AAAAAATTACAATATTACAATATATC
1 AAAAAATTACAATATT-C---ATA-C
*** *
13353894 CCGACATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
*
13353915 --AAAATTACAAAATTACAATATTC
1 AAAAAATTACAATATT-C-ATA--C
*
13353938 ATACAAAATTATAATATTACAATATTC
1 A-A-AAAATTACAATATT-C-ATA--C
* *
13353965 ATACAAAATTATAATATTCATAT
1 A-A-AAAATTACAATATTCATAC
13353988 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
13354009 AAAA
1 AAAA
13354013 TACTAATCCA
Statistics
Matches: 120, Mismatches: 12, Indels: 27
0.75 0.08 0.17
Matches are distributed among these distances:
19 11 0.09
20 1 0.01
21 37 0.31
22 9 0.08
23 2 0.02
25 7 0.06
26 14 0.12
27 39 0.32
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:13353923 original size:19 final size:19
Alignment explanation
Indices: 13353899--13354086 Score: 90
Period size: 19 Copynumber: 9.7 Consensus size: 19
13353889 ATATCCCGAC
13353899 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
13353918 ATTACAA-AAT--TACAATA
1 ATTACAATATTCATACAA-A
* * *
13353935 TTCATACAAAATT-AT--AAT
1 AT--TACAATATTCATACAAA
13353953 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
13353972 ATTATAATATTCATATAAAAA
1 ATTACAATATTC--ATACAAA
13353993 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
* * *
13354012 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
13354032 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
13354054 ATTACAATATTAATACAAA
1 ATTACAATATTCATACAAA
13354073 ATTACAATATTCAT
1 ATTACAATATTCAT
13354087 TGGCGCCTCT
Statistics
Matches: 128, Mismatches: 20, Indels: 42
0.67 0.11 0.22
Matches are distributed among these distances:
16 13 0.10
17 7 0.05
18 10 0.08
19 52 0.41
20 14 0.11
21 20 0.16
22 5 0.04
23 5 0.04
25 2 0.02
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:13353976 original size:27 final size:27
Alignment explanation
Indices: 13353899--13353982 Score: 150
Period size: 27 Copynumber: 3.1 Consensus size: 27
13353889 ATATCCCGAC
* *
13353899 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTATAAT
13353926 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTATAAT
13353953 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTATAAT
13353980 ATT
1 ATT
13353983 CATATAAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTATAAT
Found at i:13354036 original size:67 final size:60
Alignment explanation
Indices: 13353923--13354074 Score: 153
Period size: 67 Copynumber: 2.4 Consensus size: 60
13353913 ACAAAATTAC
** * **
13353923 AAAATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAATTATAATATTCATAT
1 AAAATTACAATATTCATACAAAA-TATAATACCAAAATATAAATAC-AAATT-T-A-ATT-ATA-
13353988 AA
59 AA
13353990 AAAATTACAATATTCATACAAAATACTAAT-CCAAAACTATAAATACAAATTTAATTATAAA
1 AAAATTACAATATTCATACAAAATA-TAATACCAAAA-TATAAATACAAATTTAATTATAAA
* *
13354051 ATAATTACAATATTAATACAAAAT
1 AAAATTACAATATTCATACAAAAT
13354075 TACAATATTC
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
61 24 0.32
62 3 0.04
63 3 0.04
64 1 0.01
65 1 0.01
66 10 0.13
67 34 0.45
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (60 bp):
AAAATTACAATATTCATACAAAATATAATACCAAAATATAAATACAAATTTAATTATAAA
Found at i:13355995 original size:19 final size:18
Alignment explanation
Indices: 13355951--13355999 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
13355941 CCTTAAATTG
*
13355951 ATATAATAAATTAGTATA
1 ATATAATATATTAGTATA
* *
13355969 TTACTAATATATTATTAATA
1 ATA-TAATATATTAGT-ATA
13355989 ATATAATATAT
1 ATATAATATAT
13356000 AACTATTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 2 0.08
19 18 0.72
20 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATATAATATATTAGTATA
Found at i:13356028 original size:30 final size:28
Alignment explanation
Indices: 13355986--13356058 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 28
13355976 TATATTATTA
13355986 ATAATATAATATATAACTATTACTAAAAAT
1 ATAA-ATAATATATAACTATTA-TAAAAAT
* *
13356016 ATAAATACATATATAACTATTATTATAAT
1 ATAAATA-ATATATAACTATTATAAAAAT
*
13356045 ATAAATTATA-ATAA
1 ATAAATAATATATAA
13356059 AATATATGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.10
28 3 0.08
29 14 0.36
30 18 0.46
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (28 bp):
ATAAATAATATATAACTATTATAAAAAT
Found at i:13356144 original size:27 final size:25
Alignment explanation
Indices: 13356093--13356147 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 25
13356083 TCATCGATAC
13356093 ATTTGTATATATATAAATTATTAAT
1 ATTTGTATATATATAAATTATTAAT
*
13356118 ATTT-TATATGATATATCATTATATAAT
1 ATTTGTATAT-ATATA-AATTAT-TAAT
13356145 ATT
1 ATT
13356148 GTAGGAGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.19
25 9 0.35
26 5 0.19
27 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
ATTTGTATATATATAAATTATTAAT
Found at i:13358780 original size:3 final size:3
Alignment explanation
Indices: 13358691--13358766 Score: 64
Period size: 3 Copynumber: 24.0 Consensus size: 3
13358681 TAAATGGGTC
* *
13358691 AAT AAA AAT AAT AAT AAGGT AAGT AAT AAT AAT AA- ATAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AA--T AA-T AAT AAT AAT AAT A-AT AAT AAT AAT
* *
13358739 GAC AAT AAT AAT AAT AAT AAT AACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT
13358767 TAGCTAAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
2 1 0.02
3 49 0.80
4 8 0.13
5 3 0.05
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:13359268 original size:22 final size:22
Alignment explanation
Indices: 13359237--13359287 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
13359227 TCCAGTCATA
*
13359237 GGCTCCGACGCACCTCCGCCGT
1 GGCTCTGACGCACCTCCGCCGT
13359259 GGCTCTGACGCACCTCCGCCGT
1 GGCTCTGACGCACCTCCGCCGT
*
13359281 AGCTCTG
1 GGCTCTG
13359288 CTGCATCGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.10, C:0.45, G:0.27, T:0.18
Consensus pattern (22 bp):
GGCTCTGACGCACCTCCGCCGT
Found at i:13363946 original size:19 final size:18
Alignment explanation
Indices: 13363922--13363957 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
13363912 TGCGTTACAA
13363922 ATAATAAGTAATAATATAT
1 ATAATAAGTAAT-ATATAT
13363941 ATAATAAGTAATATATA
1 ATAATAAGTAATATATA
13363958 ATGTACTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
ATAATAAGTAATATATAT
Found at i:13364372 original size:254 final size:249
Alignment explanation
Indices: 13363922--13364981 Score: 1040
Period size: 251 Copynumber: 4.3 Consensus size: 249
13363912 TGCGTTACAA
* * * * * *
13363922 ATAATAAGTAATAATATATATAATAAGTAATATATAATGTACTACTATTATACATAACTAGTATT
1 ATAATAA-TAA-AAAATAAATAAT-ATTAATATATAATGTACTAATATTATATATAACTATTATT
* * * * * *
13363987 ATAATATTGGTTATAATAAAAGATATAGTATTACATGATATTATAATATTTAATCATTTATGC--
63 ATATTATAGATTATAATAAAAGATATAGTATTACATAATATTATAATGTTTAATCATTAATGCTA
*
13364050 -A-A-AT--A-TA-T-A-A-ACTAT-TACTATATGATATGATATAACATTATATAATATAGTAGG
128 TATATATGAACTATTAATATATTATATACTATATGATATGATATAACATTATATAATATAGTAGG
* * * *
13364104 AGTGCTAACTTTCAAATGTGCGAAAAGTTTAGTGACTTAGAACATATTTCAACTAGT
193 AGAGCTAACTTTCAAATGTACGAAAAGTATAGGGACTTAGAACATATTTCAACTAGT
* * *
13364161 ATAATAATAAAAAATAATATGCAATATGTAATATATAACGTATTACTATTATATATAACTATTAT
1 ATAATAATAAAAAATAA-AT--AATAT-TAATATATAATGTACTAATATTATATATAACTATTAT
** *
13364226 TATATTATAGATTATAATAAAAGATATAACATTACATAATGTTATAATGTTTAATCATTAATGCG
62 TATATTATAGATTATAATAAAAGATATAGTATTACATAATATTATAATGTTTAATCATTAATGC-
* * *
13364291 TATATATATGAACTATTAATATATTATATACTATATGATATGATATAATATTATATAGTATAGTG
126 TATATATATGAACTATTAATATATTATATACTATATGATATGATATAACATTATATAATATAGTA
* * * * *
13364356 GGAGGGCTAGCTTTCAAATGCACG--AAG-ATAGGGACTTAGACCATAATTCAACTAGT
191 GGAGAGCTAACTTTCAAATGTACGAAAAGTATAGGGACTTAGAACATATTTCAACTAGT
* * * * * *
13364412 ACAATAACAAACAATAATATATAATAATTAATGTATAATATACTAGTATTATATATAACTATTAT
1 ATAATAA-TAA-AA-AATAAATAAT-ATTAATATATAATGTACTAATATTATATATAACTATTAT
* * * *
13364477 TATATTAAAGATTATAATAAAACATATAGTATTGCATGATATTATAATGTTTAATCATTAATGC-
62 TATATTATAGATTATAATAAAAGATATAGTATTACATAATATTATAATGTTTAATCATTAATGCT
* *
13364541 ATATATA--AACTATTAATATGTTATATACTACATGATATGATAGATATAGCATTATATAATATA
127 ATATATATGAACTATTAATATATTATATACTATATGATATGAT--ATA-A-CATTATATAATATA
* * **
13364604 GAAGGAGAACTAACTTTCAAATGTATAAAAAGTATAGGGACTTAGAACATATTTCAA-TCA--
188 GTAGGAGAGCTAACTTTCAAATGTACGAAAAGTATAGGGACTTAGAACATATTTCAACT-AGT
* * *
13364664 AT-ATAATAACAAA-CAATAATA-T-ATA-ATAA--T--TAATATGTA-ATGT-ACTATTATTAT
1 ATAATAATAAAAAATAAATAATATTAATATATAATGTACTAATAT-TATATATAACTATTATTAT
** * * * * *
13364718 ATTATAGAACATAATAAAAGATATAGTATTTCTTTATATTATAATGTTTAATCATTGATGTATAT
65 ATTATAGATTATAATAAAAGATATAGTATTACATAATATTATAATGTTTAATCATTAATG-CTAT
* * *
13364783 ATATATGTATATAAACTATTTATATATTATATACTATATGATATGATATAATATTATATAATAAA
129 ATATATG------AACTATTAATATATTATATACTATATGATATGATATAACATTATATAATATA
* * * * * *
13364848 ATAAGAGAGCTAACTTTCAAATGTATGAAAAATATAGAGACTTAGAACATATTTCAACCAGT
188 GTAGGAGAGCTAACTTTCAAATGTACGAAAAGTATAGGGACTTAGAACATATTTCAACTAGT
*
13364910 ATAATAATAAACAAT-AAT-A-ATTAATATATAATGTACTAATATTATATATAACTATTATTATA
1 ATAATAATAAAAAATAAATAATATTAATATATAATGTACTAATATTATATATAACTATTATTATA
13364972 TTATAGATTA
66 TTATAGATTA
13364982 GTTTATTTTG
Statistics
Matches: 674, Mismatches: 92, Indels: 96
0.78 0.11 0.11
Matches are distributed among these distances:
237 5 0.01
238 68 0.10
239 16 0.02
240 100 0.15
241 1 0.00
243 4 0.01
244 66 0.10
245 4 0.01
246 10 0.01
247 52 0.08
248 38 0.06
249 13 0.02
250 5 0.01
251 161 0.24
252 18 0.03
253 32 0.05
254 81 0.12
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (249 bp):
ATAATAATAAAAAATAAATAATATTAATATATAATGTACTAATATTATATATAACTATTATTATA
TTATAGATTATAATAAAAGATATAGTATTACATAATATTATAATGTTTAATCATTAATGCTATAT
ATATGAACTATTAATATATTATATACTATATGATATGATATAACATTATATAATATAGTAGGAGA
GCTAACTTTCAAATGTACGAAAAGTATAGGGACTTAGAACATATTTCAACTAGT
Found at i:13364686 original size:491 final size:483
Alignment explanation
Indices: 13363937--13364981 Score: 1154
Period size: 491 Copynumber: 2.1 Consensus size: 483
13363927 AAGTAATAAT
* * * * * *
13363937 ATATATAATAAGTAATATATAATGTACTACTATTATACATAACTAGTATTATAATATTGGTTATA
1 ATATATAATAA-TAAT-TATAATGTACTAATATTATATATAACTATTATTATATTATAGATTATA
* *
13364002 ATAAAAGATATAGTATTACATGATATTATAATATTTAATCATTTATGCAAATATATAAACTATTA
64 ATAAAACATATAGTATTACATGATATTATAATATTTAATCATTAATGCAAATATATAAACTATTA
* * ** * *
13364067 CTATATGATATGATATAACATTATATAATATAGTAGGAGTGCTAACTTTCAAATGTGCGAAAAGT
129 CTACATGATATGATATAACATTATATAATATAGAAGGAGAACTAACTTTCAAATGTACAAAAAGT
* * *
13364132 TTAGTGACTTAGAACATATTTCAACTAGTATAATAATAAAAAATAATATGCAATATGTAATATAT
194 ATAGGGACTTAGAACATATTTCAACTAG-ATAATAAT---AAACAATA-GCAATA-GTAATATAT
* **
13364197 AACGT-ATTACTAT-TATATATAACTATTATTATATTATAGATTATAATAAAAGATATAACATTA
253 AA--TAATTAATATGTA-ATAT-ACTATTATTATATTATAGAACATAATAAAAGATATAACATTA
* *
13364260 CATAATGTTATAATGTTTAATCATTAATGCGTATATATATG-AACTATTAATATATTATATACTA
314 CATAATATTATAATGTTTAATCATTAATGCATATATATATGAAACTATTAATATATTATATACTA
* * * ** * * *
13364324 TATGATATGATATAATATTATATAGTATAGTGGGAGGGCTAGCTTTCAAATGCACG-AAGATAGG
379 TATGATATGATATAATATTATATAATAAAATAAGAGAGCTAACTTTCAAATGCACGAAAGATAGA
* *
13364388 GACTTAGACCATAATTCAACTAGTACAATAACAAACAATA
444 GACTTAGAACATAATTCAACCAGTACAATAACAAACAATA
* * *
13364428 ATATATAATAATTAATGTATAATATACTAGTATTATATATAACTATTATTATATTAAAGATTATA
1 ATATATAATAA-TAAT-TATAATGTACTAATATTATATATAACTATTATTATATTATAGATTATA
* *
13364493 ATAAAACATATAGTATTGCATGATATTATAATGTTTAATCATTAATGCATATATAAACTATTAAT
64 ATAAAACATATAGTATTACATGATATTATAATATTTAATCATTAATGCA-A-AT--A-TA-TAA-
*
13364558 ATGTTATATACTACATGATATGATAGATATAGCATTATATAATATAGAAGGAGAACTAACTTTCA
122 A--CTAT-TACTACATGATATGAT--ATA-A-CATTATATAATATAGAAGGAGAACTAACTTTCA
*
13364623 AATGTATAAAAAGTATAGGGACTTAGAACATATTTCAA-TCA-AT-ATAAT-AACAA-A-C-A-A
180 AATGTACAAAAAGTATAGGGACTTAGAACATATTTCAACT-AGATAATAATAAACAATAGCAATA
* *
13364680 -TAATATATAATAATTAATATGTAATGTACTATTATTATATTATAGAACATAATAAAAGATATAG
244 GTAATATATAATAATTAATATGTAATATACTATTATTATATTATAGAACATAATAAAAGATATAA
* * * * * * *
13364744 TATTTCTTTATATTATAATGTTTAATCATTGATGTATATATATATGTATATAAACTATTTATATA
309 CATTACATAATATTATAATGTTTAATCATTAATGCATATATATATG-----AAACTATTAATATA
* *
13364809 TTATATACTATATGATATGATATAATATTATATAATAAAATAAGAGAGCTAACTTTCAAATGTAT
369 TTATATACTATATGATATGATATAATATTATATAATAAAATAAGAGAGCTAACTTTCAAATGCAC
* * * *
13364874 GAAAAATATAGAGACTTAGAACATATTTCAACCAGTATAATAATAAACAATA
434 G--AAAGATAGAGACTTAGAACATAATTCAACCAGTACAATAACAAACAATA
13364926 ATA-AT--TAAT-A-TATAATGTACTAATATTATATATAACTATTATTATATTATAGATTA
1 ATATATAATAATAATTATAATGTACTAATATTATATATAACTATTATTATATTATAGATTA
13364982 GTTTATTTTG
Statistics
Matches: 470, Mismatches: 58, Indels: 52
0.81 0.10 0.09
Matches are distributed among these distances:
489 73 0.16
490 10 0.02
491 155 0.33
492 1 0.00
493 4 0.01
494 2 0.00
495 74 0.16
496 2 0.00
497 6 0.01
498 49 0.10
500 3 0.01
501 15 0.03
502 5 0.01
503 5 0.01
504 2 0.00
505 64 0.14
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.38
Consensus pattern (483 bp):
ATATATAATAATAATTATAATGTACTAATATTATATATAACTATTATTATATTATAGATTATAAT
AAAACATATAGTATTACATGATATTATAATATTTAATCATTAATGCAAATATATAAACTATTACT
ACATGATATGATATAACATTATATAATATAGAAGGAGAACTAACTTTCAAATGTACAAAAAGTAT
AGGGACTTAGAACATATTTCAACTAGATAATAATAAACAATAGCAATAGTAATATATAATAATTA
ATATGTAATATACTATTATTATATTATAGAACATAATAAAAGATATAACATTACATAATATTATA
ATGTTTAATCATTAATGCATATATATATGAAACTATTAATATATTATATACTATATGATATGATA
TAATATTATATAATAAAATAAGAGAGCTAACTTTCAAATGCACGAAAGATAGAGACTTAGAACAT
AATTCAACCAGTACAATAACAAACAATA
Found at i:13364746 original size:238 final size:243
Alignment explanation
Indices: 13364469--13364928 Score: 621
Period size: 244 Copynumber: 1.9 Consensus size: 243
13364459 ATTATATATA
**
13364469 ACTATTATTATATTAAAGATTATAATAAAACATATAGTATTGCATGATATTATAATGTTTAATCA
1 ACTATTATTATATTAAAGAACATAATAAAACATATAGTATTGCATGATATTATAATGTTTAATCA
*
13364534 TTAATGCATATATA-AACTAT-T-AA-TATGTTATATACTACAT-GATATGATA-GATATAGCAT
66 TTAATGCATATATATAACTATATAAACTAT-TTATATACTACATAGATATGATATGATATAACAT
* * *
13364593 TATATAATATAGA-AGGAGAACTAACTTTCAAATGTAT-AAAAAGTATAGGGACTTAGAACATAT
130 TATATAATA-AAATAAGAGAACTAACTTTCAAATGTATGAAAAA-TATAGAGACTTAGAACATAT
*
13364656 TTCAATCAATATAATAACAAACAATAATATATAATAATTAATATGTAATGT
193 TTCAACCAATATAATAACAAACAATAATATATAATAATTAATATGTAATGT
* * * * *
13364707 ACTATTATTATATTATAGAACATAATAAAAGATATAGTATTTCTTTATATTATAATGTTTAATCA
1 ACTATTATTATATTAAAGAACATAATAAAACATATAGTATTGCATGATATTATAATGTTTAATCA
* * ** * * * *
13364772 TTGATGTATATATATATGTATATAAACTATTTATATATTATATACTATATGATATGATATAATAT
66 TTAATGCATATATATAACTATATAAACTATTTATATACTACATA-GATATGATATGATATAACAT
*
13364837 TATATAATAAAATAAGAGAGCTAACTTTCAAATGTATGAAAAATATAGAGACTTAGAACATATTT
130 TATATAATAAAATAAGAGAACTAACTTTCAAATGTATGAAAAATATAGAGACTTAGAACATATTT
* *
13364902 CAACCAGTATAATAATAAACAATAATA
195 CAACCAATATAATAACAAACAATAATA
13364929 ATTAATATAT
Statistics
Matches: 190, Mismatches: 23, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
238 70 0.37
239 4 0.02
240 1 0.01
241 13 0.07
242 3 0.02
243 10 0.05
244 84 0.44
245 5 0.03
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (243 bp):
ACTATTATTATATTAAAGAACATAATAAAACATATAGTATTGCATGATATTATAATGTTTAATCA
TTAATGCATATATATAACTATATAAACTATTTATATACTACATAGATATGATATGATATAACATT
ATATAATAAAATAAGAGAACTAACTTTCAAATGTATGAAAAATATAGAGACTTAGAACATATTTC
AACCAATATAATAACAAACAATAATATATAATAATTAATATGTAATGT
Found at i:13364792 original size:12 final size:12
Alignment explanation
Indices: 13364775--13364842 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
13364765 TTAATCATTG
13364775 ATGTATATATAT
1 ATGTATATATAT
*
13364787 ATGTATATAAACT
1 ATGTATATATA-T
*
13364800 ATTTATATAT-T
1 ATGTATATATAT
*
13364811 ATATACTATATGAT
1 ATGTA-TATAT-AT
13364825 ATG-ATATA-AT
1 ATGTATATATAT
13364835 AT-TATATA
1 ATGTATATA
13364843 ATAAAATAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 9 0.20
11 5 0.11
12 19 0.41
13 10 0.22
14 3 0.07
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:13365989 original size:20 final size:21
Alignment explanation
Indices: 13365964--13366009 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13365954 AATAATGAAA
* *
13365964 ATAAAAA-ATTGAATTAATAC
1 ATAAAAATATTAAAATAATAC
*
13365984 ATAAAAATATTAAAATAATAT
1 ATAAAAATATTAAAATAATAC
13366005 ATAAA
1 ATAAA
13366010 TTTGGAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
ATAAAAATATTAAAATAATAC
Found at i:13367738 original size:25 final size:26
Alignment explanation
Indices: 13367655--13367778 Score: 162
Period size: 26 Copynumber: 4.8 Consensus size: 26
13367645 AAACCAAACC
*
13367655 AAGCCGTTGTGGTGAATTCTCTAGTG
1 AAGCCTTTGTGGTGAATTCTCTAGTG
13367681 AAGCCTTTGTGGTGAATTCTCTAGTG
1 AAGCCTTTGTGGTGAATTCTCTAGTG
* *
13367707 AAGCCTTTGTAGTGAATGCTCT-GTG
1 AAGCCTTTGTGGTGAATTCTCTAGTG
* *
13367732 AAGCCTTTGTGGTGAACTCTCT-GTA
1 AAGCCTTTGTGGTGAATTCTCTAGTG
* **
13367757 AAGACTTTGTGGCAAATTCTCT
1 AAGCCTTTGTGGTGAATTCTCT
13367779 GAAAAGACTT
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 42 0.48
26 45 0.52
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (26 bp):
AAGCCTTTGTGGTGAATTCTCTAGTG
Found at i:13367744 original size:51 final size:51
Alignment explanation
Indices: 13367655--13367766 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
13367645 AAACCAAACC
* * * * *
13367655 AAGCCGTTGTGGTGAATTCTCTAGTGAAGCCTTTGTGGTGAATTCTCTAGTG
1 AAGCCTTTGTAGTGAATGCTCTAGTGAAGCCTTTGTGGTGAACTCTCT-GTA
13367707 AAGCCTTTGTAGTGAATGCTCT-GTGAAGCCTTTGTGGTGAACTCTCTGTA
1 AAGCCTTTGTAGTGAATGCTCTAGTGAAGCCTTTGTGGTGAACTCTCTGTA
*
13367757 AAGACTTTGT
1 AAGCCTTTGT
13367767 GGCAAATTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 11 0.20
51 24 0.44
52 19 0.35
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.37
Consensus pattern (51 bp):
AAGCCTTTGTAGTGAATGCTCTAGTGAAGCCTTTGTGGTGAACTCTCTGTA
Found at i:13369592 original size:13 final size:13
Alignment explanation
Indices: 13369574--13369600 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13369564 AAAAATCCAT
13369574 AAATTTAAAGCCA
1 AAATTTAAAGCCA
13369587 AAATTTAAAGCCA
1 AAATTTAAAGCCA
13369600 A
1 A
13369601 CCAGTCCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
AAATTTAAAGCCA
Found at i:13374877 original size:27 final size:27
Alignment explanation
Indices: 13374827--13374879 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
13374817 TATAGAAAAA
**
13374827 ATTATAAAAAATTAGTAATTATTATTC
1 ATTATAAAAAATTAGTAAGAATTATTC
* *
13374854 ATTATAAGAAATTATTAAGAATTATT
1 ATTATAAAAAATTAGTAAGAATTATT
13374880 AAAATGATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (27 bp):
ATTATAAAAAATTAGTAAGAATTATTC
Found at i:13374912 original size:19 final size:19
Alignment explanation
Indices: 13374854--13374913 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
13374844 ATTATTATTC
* *
13374854 ATTATAAGAAATTATTAAGA
1 ATTAT-AGAAAATATTAAAA
*
13374874 ATTAT-TAAAATGA-TAGAAA
1 ATTATAGAAAAT-ATTA-AAA
13374893 ATTATAGAAAATATTAAAA
1 ATTATAGAAAATATTAAAA
13374912 AT
1 AT
13374914 GATCTTCACC
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
18 6 0.19
19 14 0.44
20 12 0.38
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
ATTATAGAAAATATTAAAA
Found at i:13375820 original size:27 final size:26
Alignment explanation
Indices: 13375780--13375841 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
13375770 ATAGTAAATT
*
13375780 AATTATAATTAT-A-ATTATTT-TTA
1 AATTATAATTATCATAATATTTATTA
*
13375803 AATATGTAATTATCATAATATTTATTA
1 AAT-TATAATTATCATAATATTTATTA
13375830 AATTATAATTAT
1 AATTATAATTAT
13375842 TTTTAAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 3 0.09
24 8 0.25
25 1 0.03
26 14 0.44
27 6 0.19
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
AATTATAATTATCATAATATTTATTA
Found at i:13375847 original size:17 final size:19
Alignment explanation
Indices: 13375817--13375857 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
13375807 TGTAATTATC
13375817 ATAA-TATTTATTAAAT-T
1 ATAATTATTTATTAAATGT
13375834 ATAATTATTT-TTAAATGT
1 ATAATTATTTATTAAATGT
13375852 ATAATT
1 ATAATT
13375858 GTTGTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
ATAATTATTTATTAAATGT
Found at i:13375870 original size:44 final size:45
Alignment explanation
Indices: 13375775--13375872 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 45
13375765 TAATAATAGT
* *
13375775 AAATTAATTATAATTATAATTATTTTTAAATATGTAATTATCATA
1 AAATTTATTATAATTATAATTATTTTTAAATATATAATTATCATA
* * * **
13375820 ATATTTATTA-AATTATAATTATTTTTAAATGTATAATTGTTGTA
1 AAATTTATTATAATTATAATTATTTTTAAATATATAATTATCATA
13375864 AAATTTATT
1 AAATTTATT
13375873 TTATGTCAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 37 0.82
45 8 0.18
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (45 bp):
AAATTTATTATAATTATAATTATTTTTAAATATATAATTATCATA
Found at i:13375937 original size:23 final size:24
Alignment explanation
Indices: 13375898--13375942 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
13375888 TAAATAATAA
13375898 TTTTAAATTAAATTTTA-TAATTT
1 TTTTAAATTAAATTTTAGTAATTT
*
13375921 TTTTAAATGTGAA-TTTAGTAAT
1 TTTTAAAT-TAAATTTTAGTAAT
13375943 ATGGTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (24 bp):
TTTTAAATTAAATTTTAGTAATTT
Found at i:13378742 original size:54 final size:54
Alignment explanation
Indices: 13378654--13378761 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
13378644 ACAACTTTAG
* * * * * *
13378654 TGAGTTATATGGTTTGGATACACGACCGTATGACTCCAGCTTATATGGCTTCAA
1 TGAGTTACACGGTTTAGATACACGACAGTATGACTCCACCTTACATGGCTTCAA
*
13378708 TGAGTTACACGGTTTAGATACACGACAGTGTGACTCCACCTTACATGGCTTCAA
1 TGAGTTACACGGTTTAGATACACGACAGTATGACTCCACCTTACATGGCTTCAA
13378762 ATTTTCACAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (54 bp):
TGAGTTACACGGTTTAGATACACGACAGTATGACTCCACCTTACATGGCTTCAA
Found at i:13383986 original size:21 final size:21
Alignment explanation
Indices: 13383942--13383989 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
13383932 GGCAACCCTC
**
13383942 CTTTAACTTAACCTGAGTGCT
1 CTTTAACTTAACCCAAGTGCT
13383963 CTTTAACTTAACCCAAGT-CTT
1 CTTTAACTTAACCCAAGTGC-T
13383984 CTTTAA
1 CTTTAA
13383990 AATTAGGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (21 bp):
CTTTAACTTAACCCAAGTGCT
Found at i:13389154 original size:16 final size:16
Alignment explanation
Indices: 13389120--13389153 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
13389110 TTGATGTTTA
13389120 TTCTTTTCTCTCCTTT
1 TTCTTTTCTCTCCTTT
*
13389136 TTCTTCTTCTTTCCTTT
1 TTCTT-TTCTCTCCTTT
13389153 T
1 T
13389154 CAATCTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTTTTCTCTCCTTT
Found at i:13402380 original size:714 final size:712
Alignment explanation
Indices: 13400999--13402426 Score: 1938
Period size: 714 Copynumber: 2.0 Consensus size: 712
13400989 TGTAATTATA
*
13400999 TGAGCACATGGATAACGAAGTATGTTAAACGTCCCACAATCGCAAGTCATATTTCTCAAGTGTAC
1 TGAGCACATGGATAACGAAGTATGTTAAACGTCCCACAATCGCAAATCATATTTCTCAAGTGTAC
* * *
13401064 ACAATATTTCCCCTGGTAATACCTTGGTTCAGTCTGTCAAACTCCGTCACACGAAACCATAAATT
66 ACAATATTCCCCCCGGTAATACCTTGGTTCAGTCTGTCAAACTCCATCACACGAAACCATAAATT
* * * * * *
13401129 GTCGCGATTATGACATATTGTGTGCATAGTGTTGGCCCGCGCCTTCGTCTTGTTAATTTCTTACA
131 GTCGCGATCATAACATACTGTGTGCATAGTGTTGGCCCACACCTTCGCCTTGTTAATTTCTTACA
* * *
13401194 ATACCTTCCAGCACCATATATGGCTCACTGCATGTTGCCTTTATAACTCGCTGCTCACTTTAGAA
196 ATACCTTCCAGCACCATACATGCCTCACTGCATGTTGCCTTTATAACTCACTGCTCACTTTAGAA
** ** *
13401259 ATAGTGTCACCAAATGAAAATATGTCTCTCGCACAACCGAGGTCATCTGCAAATGACGTATTTTT
261 ATAGTGTCACCAAACAAAAATATGTCTCTCGCACAACCGAGGTCATCAACAAATGACGCATTTTT
* * * *
13401324 TTAGAATAGAATTTATGCATTCAGCCAGGTTTGAGGTTATATGACCATATCGTAGGTCGTCGTCG
326 TTAGAACAGAATTTATGCATTCAGCCAGGTTTAAGGTCATATGACCATATCGTAGGTCCTCGTCG
13401389 TATGCTTGTGTCCACTGATCGAAAGGTATGTTAAAGAGGTAGTCTGCACCTAGATCGTTAACTGA
391 TATGCTTGTGTCCACTGATCGAAAGGTATGTTAAAGAGGTAGTCTGCACCTAGATCGTTAACTGA
* *** * * *
13401454 TCACAAAATTGCCAACATCTTATGAAAATGGTCATTATTGATCTCGTACCCTGTCAAAATAAGTT
456 CCACAAAATTGCCAACATCTTATGAAAACAATCATTATTGATCTCATACCCTATCAAAAGAAGTT
* * *
13401519 GATAGCGAAAATTACATACCACTCTTTCATTCAAAATAAATTGAATATTACAAACAAAACTATAT
521 GATAGCGAAAATTACATACCACTCTTCCACTCAAAATAAATTAAATATTACAAACAAAACTATAT
* * ***
13401584 TAAAATAGATTAAATACCCATATTTGTCATTTACTGTCAATCAGTGGTAGATTGATATTGCCCAT
586 TAAAAGAGATTAAATACCCATATTAGTCATTTACTGTCAATCAGTGGTAGACCAATATTGCCCAT
* * ** *
13401649 AGTAGTTGGATGCAACGTGCCTTAGACAATACCAATGGTGTGTGTGATCTTATAGGCTTCCC
651 AGTAGTTAGACGCAACGTGCCTTAGACAATACCAATGGTGTGTGCAATCTCATAGGCTTCCC
* * * * * *
13401711 TGAGCGCATGGATAACGAAGTGTGTTAAATGTCCCACAATTGCAAATCCTATTTCTCAGGTGTAC
1 TGAGCACATGGATAACGAAGTATGTTAAACGTCCCACAATCGCAAATCATATTTCTCAAGTGTAC
* * *
13401776 ACGATATTCCCCCCGGTAATACCTTGGTTCGGTCTGTCAAACTCCATCACACGAAACCATAAGTT
66 ACAATATTCCCCCCGGTAATACCTTGGTTCAGTCTGTCAAACTCCATCACACGAAACCATAAATT
* * * *
13401841 GTTGCGATCATAACATACTGTGTGTATGGTGTTGGCCCACACCTTCGCCTTGTTAATTTCTTGCA
131 GTCGCGATCATAACATACTGTGTGCATAGTGTTGGCCCACACCTTCGCCTTGTTAATTTCTTACA
* * *
13401906 ATACCTTCC-GACACCATACATGACCTCCCTGCAT-TTGACCTTTATAACTCATTGCTCGCTTT-
196 ATACCTTCCAG-CACCATACATG-CCTCACTGCATGTTG-CCTTTATAACTCACTGCTCACTTTA
* * * * *
13401968 GAAAATAGTGTCGCCAAACAAAAATATGTCTCTCGCACAACTGAGGTTATCAATAAATGACGCGT
258 G-AAATAGTGTCACCAAACAAAAATATGTCTCTCGCACAACCGAGGTCATCAACAAATGACGCAT
* *
13402033 TTCTTTTATAACAGAATTTATTCATTCAGCCAGGTTTAAGGTCATATGACCATATCGTAGGTCAC
322 TT-TTTTAGAACAGAATTTATGCATTCAGCCAGGTTTAAGGTCATATGACCATATCGTAGGTC-C
* * * **
13402098 T-GTCGTATGCTTGTGTCCACTGATCGAAAGGTATGTTACAGAGGTATTTTGTGCCTTA-ATCGT
385 TCGTCGTATGCTTGTGTCCACTGATCGAAAGGTATGTTAAAGAGGTAGTCTGCACC-TAGATCGT
* **
13402161 TAACTGGCCGGAAAATCT-CCAACAT-TTCATGAAAACAATCATTATTGATCTCATACCCTATCA
449 TAACTGACCACAAAAT-TGCCAACATCTT-ATGAAAACAATCATTATTGATCTCATACCCTATCA
* * *
13402224 ATAGAAGTTGATAGCGAAAATTACATACCACTCTTCCACTCAGAATAAATTAAATATTACAAACG
512 AAAGAAGTTGATAGCGAAAATTACATACCACTCTTCCACTCAAAATAAATTAAATATTACAAACA
* * ** * *
13402289 AAATTATATTAATAGAGATTAAATGTCCATGTTAGTCACTTGT-C-GTCATTCAGTGGTAGACCA
577 AAACTATATTAAAAGAGATTAAATACCCATATTAGTCA-TT-TACTGTCAATCAGTGGTAGACCA
* *
13402352 ATATTGCCCATAGTAGTTAGACGCAACGTGCTTTAGACAATACCGATGGTGTGTGCAATCTCATA
640 ATATTGCCCATAGTAGTTAGACGCAACGTGCCTTAGACAATACCAATGGTGTGTGCAATCTCATA
13402417 GGCTTCCC
705 GGCTTCCC
13402425 TG
1 TG
13402427 TCGCTTAATT
Statistics
Matches: 621, Mismatches: 84, Indels: 20
0.86 0.12 0.03
Matches are distributed among these distances:
711 1 0.00
712 195 0.31
713 87 0.14
714 330 0.53
715 7 0.01
716 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (712 bp):
TGAGCACATGGATAACGAAGTATGTTAAACGTCCCACAATCGCAAATCATATTTCTCAAGTGTAC
ACAATATTCCCCCCGGTAATACCTTGGTTCAGTCTGTCAAACTCCATCACACGAAACCATAAATT
GTCGCGATCATAACATACTGTGTGCATAGTGTTGGCCCACACCTTCGCCTTGTTAATTTCTTACA
ATACCTTCCAGCACCATACATGCCTCACTGCATGTTGCCTTTATAACTCACTGCTCACTTTAGAA
ATAGTGTCACCAAACAAAAATATGTCTCTCGCACAACCGAGGTCATCAACAAATGACGCATTTTT
TTAGAACAGAATTTATGCATTCAGCCAGGTTTAAGGTCATATGACCATATCGTAGGTCCTCGTCG
TATGCTTGTGTCCACTGATCGAAAGGTATGTTAAAGAGGTAGTCTGCACCTAGATCGTTAACTGA
CCACAAAATTGCCAACATCTTATGAAAACAATCATTATTGATCTCATACCCTATCAAAAGAAGTT
GATAGCGAAAATTACATACCACTCTTCCACTCAAAATAAATTAAATATTACAAACAAAACTATAT
TAAAAGAGATTAAATACCCATATTAGTCATTTACTGTCAATCAGTGGTAGACCAATATTGCCCAT
AGTAGTTAGACGCAACGTGCCTTAGACAATACCAATGGTGTGTGCAATCTCATAGGCTTCCC
Found at i:13404611 original size:125 final size:125
Alignment explanation
Indices: 13404389--13404779 Score: 588
Period size: 126 Copynumber: 3.1 Consensus size: 125
13404379 TAAGGCCAAG
* * * *
13404389 CAGGAATTACTGTAGAAAAA-AGTGTCCACATGGGAGCTTTTTTCAGTAATTTTGTTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCATAT-GGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
13404453 ATCCTGCTTAAAGCATTTTTTACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
65 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
13404514 -AGGAACTACTATAGAAAAAGAGCGTCTATATAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCATAT-GGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
13404578 ATCCTGATTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
65 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
13404639 CAGGAACTACTGTAGAAAAGGAGCGTCCATATGAGAGCTTTTTTCAGTAATTTTGCTGACAGTAC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCATATG-GAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
13404704 ATCCTGCTTGAAGCGTTTTTGACATTATTTTTTCAGAACCGTCTTCTCAAAATTAATTTTT
65 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
13404765 CTGAAACTACTGTAG
1 CAGGAACTACTGTAG
13404780 CAAATAAAAC
Statistics
Matches: 241, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
124 17 0.07
125 96 0.40
126 128 0.53
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (125 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCATATGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:13404914 original size:34 final size:34
Alignment explanation
Indices: 13404876--13404941 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
13404866 AAAAATTATT
13404876 TTAAAAAAACTAAACCCTAATTTAATTAATTTTC
1 TTAAAAAAACTAAACCCTAATTTAATTAATTTTC
*** *
13404910 TTAAAATCTCTAAATCCTAATTTAATTAATTT
1 TTAAAAAAACTAAACCCTAATTTAATTAATTT
13404942 ATTTTAAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (34 bp):
TTAAAAAAACTAAACCCTAATTTAATTAATTTTC
Found at i:13404957 original size:34 final size:34
Alignment explanation
Indices: 13404885--13404966 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
13404875 TTTAAAAAAA
* * *
13404885 CTAAACCCTAATTTAATTAATTTTCTTAAAATCT
1 CTAAAACCTAATTTAATTAATTTTCTTAAAACCC
* *
13404919 CTAAATCCTAATTTAATTAATTTAT-TTTAAACCC
1 CTAAAACCTAATTTAATTAATTT-TCTTAAAACCC
13404953 CTAAAACCTAATTT
1 CTAAAACCTAATTT
13404967 TTTTTAAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 41 0.98
35 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (34 bp):
CTAAAACCTAATTTAATTAATTTTCTTAAAACCC
Found at i:13404965 original size:25 final size:25
Alignment explanation
Indices: 13404936--13404996 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
13404926 CTAATTTAAT
*
13404936 TAATTTATTTTAAACCCCTAAAACC
1 TAATTTATTTTAAAACCCTAAAACC
* * *
13404961 TAATTTTTTTTAAAACTCTAAACCC
1 TAATTTATTTTAAAACCCTAAAACC
*
13404986 TGATTTATTTT
1 TAATTTATTTT
13404997 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.46
Consensus pattern (25 bp):
TAATTTATTTTAAAACCCTAAAACC
Found at i:13411762 original size:14 final size:14
Alignment explanation
Indices: 13411743--13411781 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13411733 TAGCAAACAG
*
13411743 TATAATAATAATGA
1 TATAATAATAATAA
*
13411757 TATAATGATAATAA
1 TATAATAATAATAA
*
13411771 AATAATAATAA
1 TATAATAATAA
13411782 GAATGGACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:13413636 original size:18 final size:18
Alignment explanation
Indices: 13413613--13413656 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
13413603 ACCTAATCCA
13413613 AACCCAAGTAT-CCAACCC
1 AACCCAA-TATCCCAACCC
*
13413631 AACCCAATTTCCCAACCC
1 AACCCAATATCCCAACCC
13413649 AACCCAAT
1 AACCCAAT
13413657 CATAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.39, C:0.45, G:0.02, T:0.14
Consensus pattern (18 bp):
AACCCAATATCCCAACCC
Found at i:13413720 original size:12 final size:11
Alignment explanation
Indices: 13413686--13413724 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
13413676 TTAATAAATA
13413686 AAAATAAAATTCT
1 AAAATAAAA--CT
13413699 AAAATAAAACT
1 AAAATAAAACT
13413710 AAAACTAAAACT
1 AAAA-TAAAACT
13413722 AAA
1 AAA
13413725 GTCTAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.24
12 10 0.40
13 9 0.36
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAAACT
Found at i:13413821 original size:9 final size:9
Alignment explanation
Indices: 13413807--13413873 Score: 73
Period size: 9 Copynumber: 7.4 Consensus size: 9
13413797 GTAGTGATTC
13413807 AATTCGGTT
1 AATTCGGTT
*
13413816 AATTCGGTC
1 AATTCGGTT
*
13413825 AATTCGGGT
1 AATTCGGTT
13413834 AATTCGGTT
1 AATTCGGTT
*
13413843 AATTCAAG-T
1 AATTC-GGTT
*
13413852 AATTCGATT
1 AATTCGGTT
*
13413861 AATTCAGTT
1 AATTCGGTT
13413870 AATT
1 AATT
13413874 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
9 46 0.98
10 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:13413839 original size:27 final size:27
Alignment explanation
Indices: 13413807--13413873 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
13413797 GTAGTGATTC
* *
13413807 AATTCGGTTAATTC-GGTCAATTCGGGT
1 AATTCGGTTAATTCAAGT-AATTCGAGT
*
13413834 AATTCGGTTAATTCAAGTAATTCGATT
1 AATTCGGTTAATTCAAGTAATTCGAGT
*
13413861 AATTCAGTTAATT
1 AATTCGGTTAATT
13413874 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (27 bp):
AATTCGGTTAATTCAAGTAATTCGAGT
Found at i:13427667 original size:25 final size:25
Alignment explanation
Indices: 13427633--13427715 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
13427623 GTTGTAAACA
*
13427633 GTAAACTCCTCCGAGCTGAATAACG
1 GTAAGCTCCTCCGAGCTGAATAACG
*
13427658 GTAAGCTCCTCCGAGTTGAATAACG
1 GTAAGCTCCTCCGAGCTGAATAACG
** * * * * *
13427683 ACAATCTCATGCGAGCTGAGTAATG
1 GTAAGCTCCTCCGAGCTGAATAACG
13427708 GTAAGCTC
1 GTAAGCTC
13427716 ATATGAGCTG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (25 bp):
GTAAGCTCCTCCGAGCTGAATAACG
Found at i:13428622 original size:20 final size:19
Alignment explanation
Indices: 13428593--13428632 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
13428583 TAAAAGATGA
*
13428593 TATCTTTAATGTATTTTAT
1 TATCTTTAATATATTTTAT
*
13428612 TATCATTTAATATGTTTTAT
1 TATC-TTTAATATATTTTAT
13428632 T
1 T
13428633 TTAATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TATCTTTAATATATTTTAT
Found at i:13433885 original size:50 final size:50
Alignment explanation
Indices: 13433775--13434009 Score: 213
Period size: 50 Copynumber: 4.6 Consensus size: 50
13433765 ACATGACAAA
* ** * * *
13433775 GCCATGTCCCAGACATGGTCTTACATGAGATGTTTCTTGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGGTGCCAAT
* * * ** *
13433824 GCCATATCCCAGATATGGTCTTACGTGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
* ** * *
13433874 GCCATGTCCCAGACATAGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
* **
13433924 GCCATGTCCAAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAAT
13433980 GCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
13434010 TCTCATCCCC
Statistics
Matches: 150, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 31 0.21
50 81 0.54
53 2 0.01
56 35 0.23
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAT
Found at i:13437912 original size:13 final size:13
Alignment explanation
Indices: 13437891--13437916 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13437881 TGAAAAATTT
13437891 TTAAGAAATTTTG
1 TTAAGAAATTTTG
13437904 TTAAGAAATTTTG
1 TTAAGAAATTTTG
13437917 ATGTTTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTAAGAAATTTTG
Found at i:13438140 original size:32 final size:32
Alignment explanation
Indices: 13438077--13438144 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 32
13438067 TGGATAGGTT
13438077 TTAATGTAATTATGATAATTTTTAAAGGTTAA
1 TTAATGTAATTATGATAATTTTTAAAGGTTAA
*
13438109 TTAA-GTAATT-TGATAATTATGTTAAATGTTAA
1 TTAATGTAATTATGATAATT-T-TTAAAGGTTAA
13438141 TTAA
1 TTAA
13438145 ACAAAAGATG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
30 8 0.24
31 7 0.21
32 18 0.55
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (32 bp):
TTAATGTAATTATGATAATTTTTAAAGGTTAA
Found at i:13441004 original size:18 final size:18
Alignment explanation
Indices: 13440981--13441042 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
13440971 ACTAATTTGA
13440981 TTTATTTGTTAAGACTTT
1 TTTATTTGTTAAGACTTT
* **
13440999 TTTA-TT-TTCATTCATTT
1 TTTATTTGTTAAGAC-TTT
13441016 GATTTATTTGTTAAGACTTT
1 --TTTATTTGTTAAGACTTT
13441036 TTTATTT
1 TTTATTT
13441043 CTTTGGAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 11 0.33
19 4 0.12
20 5 0.15
21 4 0.12
ACGTcount: A:0.21, C:0.06, G:0.08, T:0.65
Consensus pattern (18 bp):
TTTATTTGTTAAGACTTT
Found at i:13441221 original size:16 final size:16
Alignment explanation
Indices: 13441200--13441233 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
13441190 AAGGCATCCG
13441200 CCACACAATGCCCTTC
1 CCACACAATGCCCTTC
13441216 CCACACAATGCCCTTC
1 CCACACAATGCCCTTC
13441232 CC
1 CC
13441234 TATACTTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.53, G:0.06, T:0.18
Consensus pattern (16 bp):
CCACACAATGCCCTTC
Found at i:13449639 original size:24 final size:24
Alignment explanation
Indices: 13449612--13449658 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
13449602 AGAAATATGA
13449612 ATGGTAATAAGATAATAAACTAAT
1 ATGGTAATAAGATAATAAACTAAT
13449636 ATGGTAATAAGATAATAAACTAA
1 ATGGTAATAAGATAATAAACTAA
13449659 GTGTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (24 bp):
ATGGTAATAAGATAATAAACTAAT
Found at i:13454763 original size:502 final size:503
Alignment explanation
Indices: 13453818--13454825 Score: 1642
Period size: 502 Copynumber: 2.0 Consensus size: 503
13453808 CATCCATTAC
* *
13453818 CTAACCAAGTCATTTTTCAAAATGCCAACCATTCTCATAATCTTATAATGCATGAAATGTAACAC
1 CTAACCAAGTCATGTTTCAAAATGCCAACCATTCTCATAATCTTATAATCCATGAAATGTAACAC
* *
13453883 CTTATACCCGGCACAGTCATTGAGCCCTAGTAACATGACGCTACACCACCGTCACAACATCACAC
66 CTTATACCCGGCACAGTCACTGAGCCCAAGTAACATGACGCTACACCACCGTCACAACATCACAC
* * * *
13453948 ATCACATAACGTCTCATTATAATGCAAACGCCACCAAATTTGAACCAATTATAGAGATTCCAAGC
131 ATCACATAAAGTCTCACTAGAATGCAAACACCACCAAATTTGAACCAATTATAGAGATTCCAAGC
13454013 CAAGAATACCCTAGGCGACATTAAGTTATGCCAAACATACATAAAAATGAGCCCATAACAAATTA
196 CAAGAATACCCTAGGCGACATTAAGTTATGCCAAACATACATAAAAATGAGCCCATAACAAATTA
** *
13454078 AAAGCATGCTTTAATTCCACTTAACAAAAATTATCAAAAATCACATAGGTACTGATACTAATTCA
261 AAAGCATGCTTTAAGACCACTTAACAAAAATTATCAAAAATCACATAGGTACCGATACTAATTCA
* *
13454143 ATGGTATCGATATTTCTCATATATGGTATCGATACCGATAAAAAAATCAGTACCAAATTAGTATT
326 ATGATATCGATATTTCTCATATATGGTATCGATACCGATAAAAAAATCAGTACCAAATCAGTATT
* * *
13454208 CAATTTTTCTGCAAAATTTAAAACCTATCAATTATAGATAGAAATAAAAAATGTATCGGTATTTC
391 CAATTTTTCTGCAAAAGTTAAAACCCATCAATTATAGATAGAAATAAAAAATGTATCAGTATTTC
* * *
13454273 TACCTCGAGTATCGATACTCAAGAAATGGTATCG-ATACCAAAATGAA
456 TACCCCGAGTATAGACACTCAAGAAATGGTATCGAATACCAAAATGAA
*
13454320 CTAACCAAGTCATGTTTCAAAATGCCGACCATTCTCATAATCTTATAATCCATGAAATGTAACAC
1 CTAACCAAGTCATGTTTCAAAATGCCAACCATTCTCATAATCTTATAATCCATGAAATGTAACAC
* ** * * *
13454385 CTTCTACTTGGCCCGGTCGCTGAGCCCAAGTAACATGACGCTACACCACCGTCACAACATCACAC
66 CTTATACCCGGCACAGTCACTGAGCCCAAGTAACATGACGCTACACCACCGTCACAACATCACAC
* *
13454450 ATCACATAAAGTCTCACTAGAATGCAAACATCACCAAATTTGGACCAATTATAGAGATAT-CAAG
131 ATCACATAAAGTCTCACTAGAATGCAAACACCACCAAATTTGAACCAATTATAGAGAT-TCCAAG
* *
13454514 CCAAGAATACCCTAGGCGACATTAATTTATGCCAAACATACATAAAAATGAGCCTATAACAAATT
195 CCAAGAATACCCTAGGCGACATTAAGTTATGCCAAACATACATAAAAATGAGCCCATAACAAATT
* *
13454579 TAAAGCATGCTTTAAGACCACTTAACAAAAATTATCAAAAATCACGTAGGTACCGATACTAATTC
260 AAAAGCATGCTTTAAGACCACTTAACAAAAATTATCAAAAATCACATAGGTACCGATACTAATTC
* *
13454644 AATGATATCGATATTTCTCATATATGGTATCGATACCGATCAAAAAATCAGTATCAAATCAGTAT
325 AATGATATCGATATTTCTCATATATGGTATCGATACCGATAAAAAAATCAGTACCAAATCAGTAT
** *
13454709 TCAATTTTTCTGCAAAAGTTAAAACCCATCAATTATAGATAGAAATCCAAAATGTATTAGTATTT
390 TCAATTTTTCTGCAAAAGTTAAAACCCATCAATTATAGATAGAAATAAAAAATGTATCAGTATTT
* *
13454774 TTACCCCGAGTATAGACACTCGAGAAATGGTATCGAATACCAAAATGAA
455 CTACCCCGAGTATAGACACTCAAGAAATGGTATCGAATACCAAAATGAA
13454823 CTA
1 CTA
13454826 CTATTTTCCT
Statistics
Matches: 465, Mismatches: 39, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
502 448 0.96
503 17 0.04
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.27
Consensus pattern (503 bp):
CTAACCAAGTCATGTTTCAAAATGCCAACCATTCTCATAATCTTATAATCCATGAAATGTAACAC
CTTATACCCGGCACAGTCACTGAGCCCAAGTAACATGACGCTACACCACCGTCACAACATCACAC
ATCACATAAAGTCTCACTAGAATGCAAACACCACCAAATTTGAACCAATTATAGAGATTCCAAGC
CAAGAATACCCTAGGCGACATTAAGTTATGCCAAACATACATAAAAATGAGCCCATAACAAATTA
AAAGCATGCTTTAAGACCACTTAACAAAAATTATCAAAAATCACATAGGTACCGATACTAATTCA
ATGATATCGATATTTCTCATATATGGTATCGATACCGATAAAAAAATCAGTACCAAATCAGTATT
CAATTTTTCTGCAAAAGTTAAAACCCATCAATTATAGATAGAAATAAAAAATGTATCAGTATTTC
TACCCCGAGTATAGACACTCAAGAAATGGTATCGAATACCAAAATGAA
Found at i:13468070 original size:55 final size:55
Alignment explanation
Indices: 13468005--13468111 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 55
13467995 AAAGAATAAA
* *
13468005 CTTAGGCTTGACAAACCTAGGAAGTTATCAATGTGGGAATTAAACCAAAATTAAC
1 CTTAGACTTGACAAACCTAGGAAGTTATCAAGGTGGGAATTAAACCAAAATTAAC
* *
13468060 CTTAGACTTGACGACCCTAGGAAGTTATCAAGGTGGGAATTAAACCAAAATT
1 CTTAGACTTGACAAACCTAGGAAGTTATCAAGGTGGGAATTAAACCAAAATT
13468112 GGTATGGCCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (55 bp):
CTTAGACTTGACAAACCTAGGAAGTTATCAAGGTGGGAATTAAACCAAAATTAAC
Found at i:13471428 original size:38 final size:37
Alignment explanation
Indices: 13471358--13471430 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
13471348 ATTTCATAAT
*
13471358 TTCACTTTTTCACTTTCAATCACAATTCAATTCAAAG
1 TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAG
13471395 TTCACTTTTCCA-TTTCTAAGTCA-ATATTCAATTCAA
1 TTCACTTTTCCACTTTC-AA-TCACA-ATTCAATTCAA
13471431 TTCCACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 14 0.44
38 14 0.44
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (37 bp):
TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAG
Found at i:13471461 original size:23 final size:22
Alignment explanation
Indices: 13471418--13471461 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
13471408 TTCTAAGTCA
13471418 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
13471441 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
13471462 TTAGTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:13471615 original size:51 final size:50
Alignment explanation
Indices: 13471556--13471746 Score: 204
Period size: 51 Copynumber: 3.8 Consensus size: 50
13471546 ATGTTTGGTT
* * * *
13471556 CACATAGTAACCTGCACATAGTACCACACATGTGACCATTACCATCCCATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGATA
* * * * *
13471607 CACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGATA
* * * * * * *
13471658 CGCATAGTAGCCTACACATAGTATTACACATGTGGCC-TATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGATA
13471708 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
13471747 CACTTTCACT
Statistics
Matches: 111, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.35
51 68 0.61
52 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGATA
Found at i:13478660 original size:20 final size:21
Alignment explanation
Indices: 13478637--13478704 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 21
13478627 TTGCACATCT
*
13478637 GTGCCCCTAATTACACATTC-
1 GTGCCCCTATTTACACATTCA
*
13478657 GTGCCCCTGTTTACACA-TCTA
1 GTGCCCCTATTTACACATTC-A
*
13478678 -TGCCCCTATTTGCAC-TTCA
1 GTGCCCCTATTTACACATTCA
13478697 GTGCCCCT
1 GTGCCCCT
13478705 GACGTCACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 3 0.08
20 37 0.93
ACGTcount: A:0.18, C:0.37, G:0.13, T:0.32
Consensus pattern (21 bp):
GTGCCCCTATTTACACATTCA
Found at i:13478682 original size:40 final size:40
Alignment explanation
Indices: 13478623--13478705 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
13478613 TTCGGTATCA
* *
13478623 CTGTTTGCACATCTGTGCCCCTAATTACACATTC-GTGCCC
1 CTGTTTACACATCTATGCCCCTAATTACAC-TTCAGTGCCC
* *
13478663 CTGTTTACACATCTATGCCCCTATTTGCACTTCAGTGCCC
1 CTGTTTACACATCTATGCCCCTAATTACACTTCAGTGCCC
13478703 CTG
1 CTG
13478706 ACGTCACATC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.08
40 35 0.92
ACGTcount: A:0.17, C:0.35, G:0.14, T:0.34
Consensus pattern (40 bp):
CTGTTTACACATCTATGCCCCTAATTACACTTCAGTGCCC
Found at i:13478714 original size:40 final size:40
Alignment explanation
Indices: 13478630--13478728 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
13478620 TCACTGTTTG
* * **
13478630 CACATCTGTGCCCCTAATTACACATTCGTGCCCCTGTTTA
1 CACATCTATGCCCCTATTTACACATTCGTGCCCCTGCGTA
*
13478670 CACATCTATGCCCCTATTTGCAC-TTCAGTGCCCCTGACGT-
1 CACATCTATGCCCCTATTTACACATTC-GTGCCCCTG-CGTA
*
13478710 CACATCTATGTCCCTATTT
1 CACATCTATGCCCCTATTT
13478729 TGCATCTATG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
39 3 0.06
40 47 0.92
41 1 0.02
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.33
Consensus pattern (40 bp):
CACATCTATGCCCCTATTTACACATTCGTGCCCCTGCGTA
Found at i:13485212 original size:23 final size:23
Alignment explanation
Indices: 13485163--13485213 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
13485153 TGTTATTGAT
* * **
13485163 CAGTGGTAGCTTCGGCTACGTTT
1 CAGTGATAGCTTCGGCTACATAA
13485186 CAGTGATAGCTTCGGCTACATAA
1 CAGTGATAGCTTCGGCTACATAA
13485209 CAGTG
1 CAGTG
13485214 GTNNNNNNNN
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (23 bp):
CAGTGATAGCTTCGGCTACATAA
Found at i:13492222 original size:23 final size:23
Alignment explanation
Indices: 13492195--13492292 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
13492185 AGTGTTATTG
13492195 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
13492218 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
13492241 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13492263 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13492286 ATCAGTG
1 ATCAGTG
13492293 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13492261 original size:45 final size:45
Alignment explanation
Indices: 13492197--13492285 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
13492187 TGTTATTGAT
*
13492197 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
13492242 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
13492286 ATCAGTGTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:13494345 original size:7 final size:7
Alignment explanation
Indices: 13494335--13494367 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
13494325 TTATTTCATC
13494335 TTTTACT
1 TTTTACT
13494342 TTTTACT
1 TTTTACT
13494349 TTTTACT
1 TTTTACT
*
13494356 TTTTACG
1 TTTTACT
13494363 TTTTA
1 TTTTA
13494368 TTGTGTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.70
Consensus pattern (7 bp):
TTTTACT
Found at i:13494346 original size:19 final size:19
Alignment explanation
Indices: 13494299--13494338 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
13494289 TATTTTGTTA
13494299 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
13494318 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
13494337 TT
1 TT
13494339 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:13495570 original size:31 final size:31
Alignment explanation
Indices: 13495516--13495581 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
13495506 CTTGTCACTT
* * *
13495516 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * *
13495547 GTAGCCGGAGCTACCATTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
13495578 GTAG
1 GTAG
13495582 TCGATGATCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:13495624 original size:31 final size:31
Alignment explanation
Indices: 13495586--13495644 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
13495576 AAGTAGTCGA
13495586 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
13495617 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
13495645 TACTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:13495719 original size:50 final size:50
Alignment explanation
Indices: 13495624--13495850 Score: 364
Period size: 50 Copynumber: 4.5 Consensus size: 50
13495614 CATTGATCAG
* * * * *
13495624 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
13495675 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
13495725 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
13495775 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
13495825 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
13495851 GTTGCCATGG
Statistics
Matches: 163, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 141 0.87
51 22 0.13
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:13498327 original size:21 final size:20
Alignment explanation
Indices: 13498302--13498364 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
13498292 ATCAAACCCT
13498302 TTAAAAATTTTAAAATATTAA
1 TTAAAAATTTTAAAAT-TTAA
13498323 TT--AAATCTTTAAAATTTTAAA
1 TTAAAAAT-TTTAAAA-TTT-AA
* *
13498344 TTAAACATTCTAAAATTTAA
1 TTAAAAATTTTAAAATTTAA
13498364 T
1 T
13498365 GTCGATTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
19 4 0.11
20 12 0.34
21 10 0.29
22 6 0.17
23 3 0.09
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAAAATTTTAAAATTTAA
Found at i:13498335 original size:20 final size:20
Alignment explanation
Indices: 13498306--13498348 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
13498296 AACCCTTTAA
13498306 AAATTTTAAAATATT-AATT
1 AAATTTTAAAATATTAAATT
*
13498325 AAATCTTTAAAATTTTAAATT
1 AAAT-TTTAAAATATTAAATT
13498346 AAA
1 AAA
13498349 CATTCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 10 0.48
21 7 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATTTTAAAATATTAAATT
Found at i:13500437 original size:32 final size:32
Alignment explanation
Indices: 13500401--13500471 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
13500391 TATATAATTA
*
13500401 TTGTTGTTGGGTTTTGAGTTTTAAATATGTTT
1 TTGTTGTTGGGTTTTGAGTTTTAAATATGTGT
13500433 TTGTTGTTGGGTTTTGAGTTTTAAATATGTGT
1 TTGTTGTTGGGTTTTGAGTTTTAAATATGTGT
13500465 TTGTTGT
1 TTGTTGT
13500472 ATAATCCGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (32 bp):
TTGTTGTTGGGTTTTGAGTTTTAAATATGTGT
Found at i:13505163 original size:19 final size:18
Alignment explanation
Indices: 13505141--13505192 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
13505131 AATTTTCAAA
*
13505141 TTAAAATTTATTGTTTTTG
1 TTAAAATTAATT-TTTTTG
* *
13505160 TTAATATTAATTTTTTTA
1 TTAAAATTAATTTTTTTG
*
13505178 TTGAAATT-ATTTTTT
1 TTAAAATTAATTTTTT
13505193 AAAGTCAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 7 0.25
18 11 0.39
19 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
TTAAAATTAATTTTTTTG
Found at i:13511736 original size:7 final size:7
Alignment explanation
Indices: 13511726--13511752 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
13511716 TATAATAAAT
13511726 AAATTTG
1 AAATTTG
13511733 AAATTTG
1 AAATTTG
13511740 AAATTTG
1 AAATTTG
13511747 AAATTT
1 AAATTT
13511753 ATATTTCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (7 bp):
AAATTTG
Found at i:13515151 original size:6 final size:6
Alignment explanation
Indices: 13515142--13515166 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13515132 AAAAAAATAT
13515142 TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
13515167 AATTTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:13516966 original size:22 final size:22
Alignment explanation
Indices: 13516941--13516982 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
13516931 CAAACTTTTT
13516941 TTTTTGTCTAAACCCTTTGATC
1 TTTTTGTCTAAACCCTTTGATC
13516963 TTTTTGTCTAAACCCTTTGA
1 TTTTTGTCTAAACCCTTTGA
13516983 GCCTCCTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.50
Consensus pattern (22 bp):
TTTTTGTCTAAACCCTTTGATC
Found at i:13523333 original size:17 final size:17
Alignment explanation
Indices: 13523311--13523370 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
13523301 TTTTAAAAAA
13523311 TAATATTTTAAAATTTC
1 TAATATTTTAAAATTTC
** *
13523328 TAATATTTTTATATTTTTT
1 TAATA-TTTTA-AAATTTC
13523347 TCAATATTTTAAAATTTC
1 T-AATATTTTAAAATTTC
13523365 TAATAT
1 TAATAT
13523371 ATATTTATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 10 0.29
18 10 0.29
19 10 0.29
20 4 0.12
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATATTTTAAAATTTC
Found at i:13523377 original size:20 final size:19
Alignment explanation
Indices: 13523313--13523414 Score: 66
Period size: 19 Copynumber: 5.4 Consensus size: 19
13523303 TTAAAAAATA
13523313 ATATTTTAAAATTTCTAAT
1 ATATTTTAAAATTTCTAAT
** * *
13523332 AT-TTTTATATTTTTTTCA-
1 ATATTTTA-AAATTTCTAAT
13523350 ATATTTTAAAATTTCTAAT
1 ATATTTTAAAATTTCTAAT
* * *
13523369 ATATATTTATATTTTTTACA-
1 ATAT-TTTAAAATTTCTA-AT
* * *
13523389 ACATTTTAAAAATTCTAAC
1 ATATTTTAAAATTTCTAAT
13523408 ATATTTT
1 ATATTTT
13523415 TAGAATTTAT
Statistics
Matches: 60, Mismatches: 17, Indels: 12
0.67 0.19 0.13
Matches are distributed among these distances:
18 14 0.23
19 32 0.53
20 13 0.22
21 1 0.02
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTTTAAAATTTCTAAT
Done.